CsGy3G018860 (gene) Cucumber (Gy14) v2

Overview
NameCsGy3G018860
Typegene
OrganismCucumis sativus (Cucumber (Gy14) v2)
DescriptionDNA-directed RNA polymerase subunit alpha
LocationChr3 : 14986908 .. 14993554 (+)
Genome Viewer
Sequences
The following sequences are available for this feature:

Gene sequence (with intron)

Legend: exonCDS
Hold the cursor over a type above to highlight its positions in the sequence below.
ATGATAACTAAGTAAGATTTTTTTTAAAAAAATTAAGAAGTCATTATCTACCCCTCAATACTTTTAATCAATTAATTTGGTTGAAAACACTTTTAAATAAGGATTTTTTTTAAAAAAATAACAAAACATTAAAATATTTATATTCTATTAAATAATTTAAAAAACGCAAAAAAACTCACGGGCCTACAATGAAAAATACAAAAAATGTCTCGTGATTATTTGGCATCCTGAATGCGTAATATATTTGAAAAACGATCGTTTAAATTTGACTATTTTTTGTTATGCGATCGTTTAGATTTGACTACCAAAATTTAAACGATTTTTTTTTTTAATTTTTGGTACACAATCATTTATATTTGACTATTTTTGGTACGCAATCATTTATATTTGACTATTTTTGGTACATGATCATTTATATTTAGTACACAATTGTTTAGATTTGATCGTTTAAATTTGACTATCTAAATCTAAACGACTTTTTTTAAGATTATTTGTTACAGAATTGTTTGGATTTGATTTTCTTTTTTTGTAGACGATCCAAATCTAAATGACATTTTTAATTTTTTTTTTTATATTTGGTAGACGAATTTAAACAACTAACCGTTTGGAAAAAAAATTAGTTCTTTTATATTTGGTACACGGTCTTGAACCAAATAATAGTTTGAAAAAAAATAAAAGAAAAATGGTAGAAGAAGAAAGAAAATGGCAGAAGAAGAAAGAAAAATGACAGAAGAAGAGAAGAAAAATGACAGAAGAAGAGAAGAAAGACGATGAAGAGAAAAAAATCGCATAAGAGAAAGAGAAGAAAAACGATGAAAAGGAAGGAAAAATATGAAATATTTTAAAAGAATGACCAACTTAATGAGTTTTTTTCATTTTGTTACACGAGCTATAAATATTTTGACTTTTTTGTTATATTTATGAAAATATAATAATTTTTTTTTGTTATATTTGATTATCCCTTAGATTTAGATAGCCAAATTTAAACAATCAAATCTAAACAATCGTGTACCAAATCTAAACGACCGTGTACTAAATTTTTTTAAAATAAAATCGTTGAGATTTGACTTTCAAGATTCAAACTATCAAATCTAAACGATCGTGTATCAAATTTAAATGTTATTCTACCAAAAAAGTTTGAAAAAAATTGTTTAGAGTTGATTATCCAAATTTAAACGATTAAATCTAAATGACTTTCTACCAAAAAAATTTTAAAAAAATTGTTTAGATTTGACTATCAAAATTTAAACTATAAAATCTAAACGATATTGTACCAAAAAATCTTGAAAAAAAATCATTTAGATTTGACTACCCAAATTTAAACAATCAAATCTAAATGCCCGTGTACCAAAAATAGTCAAATCTAAACGATCGTGTACAAAAAATTCTTGAAAAAAAATAGTTTATATTTGGGTACCCAAATCCCAAATCGAAACGATGGTGTACCGCAGAATAGCCAAATCTAAACGACCGTTTACCGAATATATGACACGCACTGGGTGCCAATTAAATGATAAGTCATCTTTGTATTTTCCATGGTGAGGCTGTGGGCTTTCTTCATTTTTGAAAATTTTCTATAGAGTGTAAATATTTTAGCGTTTGTTATATTTTTTAAAGGATCATTTTTTAAAAAAGATATTGCTATATTTTATAAATAGTTTCAACTTTTTTTTTCTATTGTTAATTTTCATAAATATAACAAAACACCAAAATAGTTATGACATGTGTAACAAATAAAAAATCATATGATATTATCATAAATTTCAGGTTTGCCGTTGAATAATGCAGATCAGTTTTCACTTCTTTTTCTGCTTCTTCTTTGCAATTTATTTCATCCCCTCTTCATATTATTAACTTCTTCAGATTATTACTTCTTATTCATTATACAATATTATGGTTATTTATGTAAATATTTACCAATTTCTTCATTTTCTCTTTAGAAATTTTTTCTTCATCATTTCTCATCTCTTTTTTTTCTTCTTGGTACAAGATCTAAATGATATTGGTACAAAATCTAAACGATCAGTTGTCTATCCTAGATAGATAAAGATAGACCATTATCACTAATAGATCGTTTAGACTGGATACAATATCGTTTAGACGGTACAAGGGTACAAGATAGTTTAGGCTGGGTACAAGCATATAAGAACGTTTAGACTAGGTAGAAGGGTACAAAAATCGTTTAGACTTGGTACAAGGGTACGAGATTATTTAGGCTTGCTACAAGATTATTTAGGCTTGCTACGAGATCGTTTAAACTTCCTACAAAATTGTTTAGACTTGCTACAAGATTGTTTAGACTTACTACGAGATCATTGCTCCAAGATCGTAGCTATGAGATTGTTTACTCTACAAGAAATCAGAGAATTCTTGACGCCACAGATCATCAGCAAAAATAGCAAAGTGTATTAACTAAGGTTTTTCCAACATCGAATTCTCCATTGGGTAGAACGTCGGGAGTACTATGTTGGGGCAACTTTTATCGACGCGCTAAAGGGACGATGTCGACATCCTCTTTATTCTCGACGTAGTCCATGCCGATGTGTAGACGACGTCGGTAGTGGAATAAGTCTGACGTCACCTCCGCATATCGGGGAAAGGGCAATCCCGATGACACATCGAGAGAAGTTTTCCTCGACGTCATCTCTGTGCATTGGGGGAAACACATGATCCCGACGTAGTTTATACCTCGAGATAAATTTATTTTTTATTATTTTATTATTATTATTATTTTAGTATTGTTTTTGGTTCCACTTCAGAAGGCAATAAACAAAATTTACAACAAATTATTAAAATTAAAAATTTATAATTTATAATTTATAAAACAAAATACAAAATCTGTATAACAAAAATTACAATTAAGCTATTCAAATTGTTCAAAACAATTACATTAATTAAAATAAAAAACTACACTTATATTCTAAAACATAGTTGCAGATGCCCAAAGAAAGAATGTCAAACCTACATATCACATAAAAGTACAGTTAGATATATATCACTGATAAGAAACTAAACAAATTAAATGTTGAAAAATATGTACCCCAAATGTTCATGGTCCCCTCTGTGCCCGACTCATTTTCTTAATCATCTTCCTCATCTCTTCAACTTGTCCTGCATAAATTTCTCCTATTTTTTCAATAGTCCCTTCCATTTGTTGGTCACGGTTTACCATTTGTTGTCACACTCCTCCTCCCTTATTTGTTGTTCTTCAATGAATCGGTTAGCATTTTCAAGGCTAGCTTTTAGTTCGCTAGCCTCTCTATTGTACATCCCTTGGTCATAGGAGGAGGAAGAACTGGAAGCAGAACTCTTTGGAGACTTGGGCTTGGGGCCCCAACCAAGATCTTTTGAAAGCCTTTTTTGAAAATTTGGAAGAAACAATTTTTTAAAAAAAGATAAAGAGAAAATATGGCTGAAACAAATTTTAGAATAAAAGGAAAAATAATAACACTTTCGATATTTGAAACAAATTTTAAAATAAAAGGAAAAATAATAACACTTTCGATATTAGCCAACTAATGGACCACATCGTACTTCTTTTTCAAAAAATAGCCAACTGTTTTCTTTCGATATTAGCCACGCTTTTTAAACTGAACAACATGAATCTGGAACAGTTTGTTTTGGTTTACGGTTCGAACATACTCATACTAGTAACATATTGTTGATCCATAAGTTCATTTTACATAATTATATGTTAGAAGTACGTAAATATTTATATTAATGTATGCATTTAAGGTATACTAGCATTACAGTGCTAAAAATAGATCATGAGGTTCGTAGGCGCTACCCTGAAATGGATAATCAAAACATTCGCACTATACTAGCTGTCTTCACATCCACCCATAATCAGTTAATACTGCTATTAGATCCACTAATGAATGACAATAAGCGGGTGACCCATATACCGTACGTATTTAGGCATCAAATTAGAGATCTTTCATACTTCCGTATGATACACTCCTCCGACCTCGTTTTTCGTGAAAGTACCAGAATGGACAGACGAACTTTACGAGAACACTTCCAGAATTTGTATCTCGAAAGATGAACAAGTGTAGACACTAGGTGTCGAAAGGTTGTTGTCCTTAATTGCGAAGTTCTATACTATTTATAAGTGATTTCTTCTAGATATACCTCACCTAATCATACTTAGTCATATGGATCCCAAGAGGTGACTATATGTGGTGTATAATGACTTCGAGAGAAGCACGCCTTAATCATAACCATGGTTGAGTAAGTTATATTGTATCAAGGTTACCACATTACTTAATCACATGATAATACATAGACATTCCTTCACTCACTTCTCGGATACAAGTTAGTTCACATCTCAATTTCACCATCTTATTCCCCCTTTACAGACTCTATAGGACTAGTTTAGTAATTTAGCTTAGTCTCGCATTCTTTACATTTCTTATTCTTTAATTATTTTATACAAAATAGAAGATGTGTAATTCCTAGAACTAATGTCTTGAATCAATTTCCTGTTTTCGACCCTGGATCATCGAGGTAAATCTATTGTTTCACTTGCACTTGGACAAGTAGTAGGAAAACTTGTACTCAATGAGAACTTAGTTACTATGCATATCGCATGTAGTGAATATGCTTAGTGACGTATCATCTAGACTAAAATATAAACTCAACACACTTCACATACTGAGACTGAGTGAATTAAGTGATCACTCAATGAATCCCCAACCACAAGTGTAATAAAAAGTTTTCATAAACTTACTAGTTCTACTAGCGTGCGTTTCTCGGAACAACTCGACACGATCTATCAGACGACCACGTTCTTCAGTGAGCTCGTGTTGTCGTTGAAGGAACGACTTGGATCCACTCCTGTGGTTGTAAGGTTCCTTTGCTTTAGCAGTTTTGTTGACCCTTATTGCTCCTACATTCAAACAATGATCAAAACGTTACATCCAAACAACAAAAATGAAGCACTGTTAAATGAAATTAAAGTAGACGATATAAATAACCTGAAGTTATTGAGTCCTGCAATTATCACAACGAAAGTCCCAATCTTGCTCGATTCACCAATCTCGACTGTGGGTTTGCGCGTGCTTCTTCAGAGTCATTGTAATGCTTGCAATGTCGATGGTTGTCTCCTTTGAATTTTTTCCACTTGCTGAGCATTCGATGCTCAACAAAATAAGTAAATGCTTGATCTTCAAAATCGAGCCGAACCATTGCTACAAAAGAATAATACATAAGAATTAGTCTTCTACATATGTAGGTTCAACATATATTTTAAATAAATTACAAACTTACCTGTAGGCCGCCCTTGACAACCTCGACGTACTCTGAAAGTACATAGACCCACTTGAGATTCTGGATCGAAAACTTATCTCAGGTTAACACATCGATCATGCAAATGAAACAAACAACATGTGGCGAGATAGACTTGTCCCCTCCTTGGGGGATTGAAAAGAGGATCTTCCCATTTTGTTGTACACACCTTTCCAACTCCAAGTTCTGGGATTCCTAACGTCTCCTCGGAATGGGAGTGGGTTGAGGGGAATATATGAAAAATACACACTATCATATTCAGAAACTTAATTACTGATTCAAGTGTTTATGTAACGAGACTAACCTGAAGTGTCACCCACTAAAGACAATCCTCCCGCATTATCTAGTAGGTCAAAGTTTAGGAAAATATCTGCTTCATGAATACCACTCGGAAATGACATAATTCCTGTAGACATAAAAATCAACAAGCTTTAAACAAATGTAAGTATCACAAACTAAATATATAAAAGAATGACTAATGTGTATACGTGAAGAAGACAATTTTATTCATCATCGCTTGATCCACTTTAAGGTGATGATAATTGTTCACCACCATCGTCTATGAAGTCGTCCACGACATGAAGCACATCCGTCCACGACATGATGTTGTGTCATCGAACTGGGTTAACAATGTTATGTCTTCCTACTATCTCTACTTATTGTTCTTATTGCTGTTTCTGTTGCTGTTAATTGTGGGTTCATCTGAATTCACTACTGTCGATTCTTTCACAGTTTTGTCAAAATTATTGATTTCTCTTCCTCTAATTTTTAAAACCCTTGTGCCCATAGGGGAATAACTAATCCTGCTCTTCGTTTTCTCATACAAATTGCTCTCCTTTATCAGCTTGTCTCATTCTCCTCTATCTCACTGTCTCAATCTCCTCTATCTCATTGTCAAGGGTCCTGGATGCGTAACTGCTCAAGACATCATCTTACCACCTTCGGTGGAAATCGTTGATAATACACAGCATATAGCTAACCTAATGGAACCAATTAATTTGTGTATTGAATTAAAGATCGAGAGGAATCGCGGATATCATATACAAACGCCAAATAATTTTCAAGACGCAAGTTATCCTATGGATGCTATATTCATGCCTGTTCGAAATGTTAATCATAGTATACATTCTTATGTAAATGGGAATGAAAAACAAGAGATACTTTTTCTCGAAATATGGACCAATGGAAGTTTAACTCCTAAAGAAGCACTTCATAATTTTAGCATAGTTTTACTTGCTAGAGTGAAGATAAGAAGAACGAAAAAAAAAAAAAAAACAAGAAAAAAGAACAAATTTAAGCGCCGAGCAAAAGAACAGAAAGAGAGAAGAAAAGGAAATACTTTTATAAACGTAAAGATATAA

mRNA sequence

ATGATAACTAACTTGTCTCATTCTCCTCTATCTCACTGTCTCAATCTCCTCTATCTCATTGTCAAGGGTCCTGGATGCGTAACTGCTCAAGACATCATCTTACCACCTTCGGTGGAAATCGTTGATAATACACAGCATATAGCTAACCTAATGGAACCAATTAATTTGTGTATTGAATTAAAGATCGAGAGGAATCGCGGATATCATATACAAACGCCAAATAATTTTCAAGACGCAAGTTATCCTATGGATGCTATATTCATGCCTGTTCGAAATGTTAATCATAGTATACATTCTTATGTAAATGGGAATGAAAAACAAGAGATACTTTTTCTCGAAATATGGACCAATGGAAGTTTAACTCCTAAAGAAGCACTTCATAATTTTAGCATAGTTTTACTTGCTAGAGTGAAGATAAGAAGAACGAAAAAAAAAAAAAAAACAAGAAAAAAGAACAAATTTAAGCGCCGAGCAAAAGAACAGAAAGAGAGAAGAAAAGGAAATACTTTTATAAACGTAAAGATATAA

Coding sequence (CDS)

ATGATAACTAACTTGTCTCATTCTCCTCTATCTCACTGTCTCAATCTCCTCTATCTCATTGTCAAGGGTCCTGGATGCGTAACTGCTCAAGACATCATCTTACCACCTTCGGTGGAAATCGTTGATAATACACAGCATATAGCTAACCTAATGGAACCAATTAATTTGTGTATTGAATTAAAGATCGAGAGGAATCGCGGATATCATATACAAACGCCAAATAATTTTCAAGACGCAAGTTATCCTATGGATGCTATATTCATGCCTGTTCGAAATGTTAATCATAGTATACATTCTTATGTAAATGGGAATGAAAAACAAGAGATACTTTTTCTCGAAATATGGACCAATGGAAGTTTAACTCCTAAAGAAGCACTTCATAATTTTAGCATAGTTTTACTTGCTAGAGTGAAGATAAGAAGAACGAAAAAAAAAAAAAAAACAAGAAAAAAGAACAAATTTAAGCGCCGAGCAAAAGAACAGAAAGAGAGAAGAAAAGGAAATACTTTTATAAACGTAAAGATATAA

Protein sequence

MITNLSHSPLSHCLNLLYLIVKGPGCVTAQDIILPPSVEIVDNTQHIANLMEPINLCIELKIERNRGYHIQTPNNFQDASYPMDAIFMPVRNVNHSIHSYVNGNEKQEILFLEIWTNGSLTPKEALHNFSIVLLARVKIRRTKKKKKTRKKNKFKRRAKEQKERRKGNTFINVKI
Homology
[Close]
BLAST of CsGy3G018860 vs. NCBI nr
Match: YP_009346515.1 (RNA polymerase alpha subunit (chloroplast) [Cucumis x hytivus] >AOW71126.1 RNA polymerase alpha subunit (chloroplast) [Cucumis x hytivus])

HSP 1 Score: 227.6 bits (579), Expect = 3.2e-56
Identity = 108/112 (96.43%), Postives = 109/112 (97.32%), Query Frame = 0 

Query: 19  LIVKGPGCVTAQDIILPPSVEIVDNTQHIANLMEPINLCIELKIERNRGYHIQTPNNFQD 78
           + VKGPGCVTAQDIILPPSVEIVDNTQHIANLMEPINLCIELKIERNRGYHIQTPNNFQD
Sbjct: 108 ICVKGPGCVTAQDIILPPSVEIVDNTQHIANLMEPINLCIELKIERNRGYHIQTPNNFQD 167

Query: 79  ASYPMDAIFMPVRNVNHSIHSYVNGNEKQEILFLEIWTNGSLTPKEALHNFS 131
           ASYPMDAIFMPVRNVNHSIHSYVNGNEKQEILFLEIWTNGSLTPKEALH  S
Sbjct: 168 ASYPMDAIFMPVRNVNHSIHSYVNGNEKQEILFLEIWTNGSLTPKEALHEAS 219

[Close]
BLAST of CsGy3G018860 vs. NCBI nr
Match: YP_247632.1 (RNA polymerase alpha subunit [Cucumis sativus] >YP_009004075.1 RNA polymerase alpha subunit [Cucumis hystrix] >Q4VZK3.1 RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=PEP; AltName: Full=Plastid-encoded RNA polymerase subunit alpha; Short=RNA polymerase subunit alpha >CAJ00791.1 RNA polymerase alpha chain (chloroplast) [Cucumis sativus] >AAZ94682.1 RNA polymerase alpha subunit (chloroplast) [Cucumis sativus] >ABI97448.1 RNA polymerase alpha subunit (chloroplast) [Cucumis sativus] >ABI98777.1 RNA polymerase alpha subunit (chloroplast) [Cucumis sativus] >AHJ61417.1 RNA polymerase alpha subunit (plastid) [Cucumis hystrix] >ALF03334.1 RNA polymerase alpha subunit (chloroplast) [Cucumis sativus var. hardwickii] >ANF28409.1 RNA polymerase alpha subunit (chloroplast) [Cucumis sativus var. hardwickii] >ARQ16110.1 RNA polymerase alpha subunit (chloroplast) [Cucumis sativus] >ARQ16193.1 RNA polymerase alpha subunit (chloroplast) [Cucumis sativus] >ARQ16276.1 RNA polymerase alpha subunit (chloroplast) [Cucumis sativus] >ARQ16359.1 RNA polymerase alpha subunit (chloroplast) [Cucumis sativus] >ASY97476.1 RNA polymerase alpha subunit (chloroplast) [Cucumis sativus var. hardwickii] >AVE15363.1 RpoA (chloroplast) [Cucumis sativus var. sativus])

HSP 1 Score: 227.6 bits (579), Expect = 3.2e-56
Identity = 108/112 (96.43%), Postives = 109/112 (97.32%), Query Frame = 0 

Query: 19  LIVKGPGCVTAQDIILPPSVEIVDNTQHIANLMEPINLCIELKIERNRGYHIQTPNNFQD 78
           + VKGPGCVTAQDIILPPSVEIVDNTQHIANLMEPINLCIELKIERNRGYHIQTPNNFQD
Sbjct: 108 ICVKGPGCVTAQDIILPPSVEIVDNTQHIANLMEPINLCIELKIERNRGYHIQTPNNFQD 167

Query: 79  ASYPMDAIFMPVRNVNHSIHSYVNGNEKQEILFLEIWTNGSLTPKEALHNFS 131
           ASYPMDAIFMPVRNVNHSIHSYVNGNEKQEILFLEIWTNGSLTPKEALH  S
Sbjct: 168 ASYPMDAIFMPVRNVNHSIHSYVNGNEKQEILFLEIWTNGSLTPKEALHEAS 219

[Close]
BLAST of CsGy3G018860 vs. NCBI nr
Match: YP_004841815.1 (RNA polymerase alpha subunit [Cucumis melo subsp. melo] >AEM76924.1 RNA polymerase alpha subunit (chloroplast) [Cucumis melo subsp. melo] >ASY96344.1 RNA polymerase alpha subunit (chloroplast) [Cucumis melo subsp. agrestis] >ASY96431.1 RNA polymerase alpha subunit (chloroplast) [Cucumis melo subsp. agrestis] >ASY96518.1 RNA polymerase alpha subunit (chloroplast) [Cucumis melo subsp. agrestis] >ASY96605.1 RNA polymerase alpha subunit (chloroplast) [Cucumis melo var. conomon] >ASY96692.1 RNA polymerase alpha subunit (chloroplast) [Cucumis melo var. makuwa] >ASY96779.1 RNA polymerase alpha subunit (chloroplast) [Cucumis melo var. momordica] >ASY96866.1 RNA polymerase alpha subunit (chloroplast) [Cucumis melo var. dudaim] >ASY96953.1 RNA polymerase alpha subunit (chloroplast) [Cucumis melo var. cantalupo] >ASY97040.1 RNA polymerase alpha subunit (chloroplast) [Cucumis melo var. cantalupo] >ASY97127.1 RNA polymerase alpha subunit (chloroplast) [Cucumis melo var. inodorus] >ASY97214.1 RNA polymerase alpha subunit (chloroplast) [Cucumis melo var. cantalupo] >ASY97301.1 RNA polymerase alpha subunit (chloroplast) [Cucumis melo var. flexuosus] >ASY97388.1 RNA polymerase alpha subunit (chloroplast) [Cucumis melo var. flexuosus])

HSP 1 Score: 223.8 bits (569), Expect = 4.6e-55
Identity = 106/112 (94.64%), Postives = 107/112 (95.54%), Query Frame = 0 

Query: 19  LIVKGPGCVTAQDIILPPSVEIVDNTQHIANLMEPINLCIELKIERNRGYHIQTPNNFQD 78
           + VKGPGCVTAQDIILPPSVEIVDNTQHIANL EPIN CIELKIERNRGYHIQTPNNFQD
Sbjct: 108 ICVKGPGCVTAQDIILPPSVEIVDNTQHIANLTEPINFCIELKIERNRGYHIQTPNNFQD 167

Query: 79  ASYPMDAIFMPVRNVNHSIHSYVNGNEKQEILFLEIWTNGSLTPKEALHNFS 131
           ASYPMDAIFMPVRNVNHSIHSYVNGNEKQEILFLEIWTNGSLTPKEALH  S
Sbjct: 168 ASYPMDAIFMPVRNVNHSIHSYVNGNEKQEILFLEIWTNGSLTPKEALHEAS 219

[Close]
BLAST of CsGy3G018860 vs. NCBI nr
Match: YP_009456178.1 (RNA polymerase alpha subunit (chloroplast) [Lagenaria siceraria] >AHM88699.1 RNA polymerase alpha subunit (chloroplast) [Lagenaria siceraria] >AHM89344.1 RNA polymerase alpha subunit (chloroplast) [Lagenaria siceraria] >AHM89521.1 RNA polymerase alpha subunit (chloroplast) [Lagenaria siceraria] >AHM89581.1 RNA polymerase alpha subunit (chloroplast) [Lagenaria siceraria] >AHM90171.1 RNA polymerase alpha subunit (chloroplast) [Lagenaria siceraria] >AHM90230.1 RNA polymerase alpha subunit (chloroplast) [Lagenaria siceraria] >AHM90348.1 RNA polymerase alpha subunit (chloroplast) [Lagenaria siceraria] >AHM90407.1 RNA polymerase alpha subunit (chloroplast) [Lagenaria siceraria] >AHM90525.1 RNA polymerase alpha subunit (chloroplast) [Lagenaria siceraria] >AHM90643.1 RNA polymerase alpha subunit (chloroplast) [Lagenaria siceraria] >AHM91289.1 RNA polymerase alpha subunit (chloroplast) [Lagenaria siceraria] >AUJ21943.1 RNA polymerase alpha subunit (chloroplast) [Lagenaria siceraria])

HSP 1 Score: 219.2 bits (557), Expect = 1.1e-53
Identity = 104/112 (92.86%), Postives = 106/112 (94.64%), Query Frame = 0 

Query: 19  LIVKGPGCVTAQDIILPPSVEIVDNTQHIANLMEPINLCIELKIERNRGYHIQTPNNFQD 78
           + VKGPGCVTAQDIILPPSVEIVDNTQHIANL EPINLCIELKIERNRGY IQTPNNFQD
Sbjct: 108 ICVKGPGCVTAQDIILPPSVEIVDNTQHIANLTEPINLCIELKIERNRGYRIQTPNNFQD 167

Query: 79  ASYPMDAIFMPVRNVNHSIHSYVNGNEKQEILFLEIWTNGSLTPKEALHNFS 131
           ASYP+DAIFMPVRN NHSIHSYVNGNEKQEILFLEIWTNGSLTPKEALH  S
Sbjct: 168 ASYPIDAIFMPVRNANHSIHSYVNGNEKQEILFLEIWTNGSLTPKEALHEAS 219

[Close]
BLAST of CsGy3G018860 vs. NCBI nr
Match: AHM88758.1 (RNA polymerase alpha subunit, partial (chloroplast) [Lagenaria siceraria])

HSP 1 Score: 219.2 bits (557), Expect = 1.1e-53
Identity = 104/112 (92.86%), Postives = 106/112 (94.64%), Query Frame = 0 

Query: 19  LIVKGPGCVTAQDIILPPSVEIVDNTQHIANLMEPINLCIELKIERNRGYHIQTPNNFQD 78
           + VKGPGCVTAQDIILPPSVEIVDNTQHIANL EPINLCIELKIERNRGY IQTPNNFQD
Sbjct: 108 ICVKGPGCVTAQDIILPPSVEIVDNTQHIANLTEPINLCIELKIERNRGYRIQTPNNFQD 167

Query: 79  ASYPMDAIFMPVRNVNHSIHSYVNGNEKQEILFLEIWTNGSLTPKEALHNFS 131
           ASYP+DAIFMPVRN NHSIHSYVNGNEKQEILFLEIWTNGSLTPKEALH  S
Sbjct: 168 ASYPIDAIFMPVRNANHSIHSYVNGNEKQEILFLEIWTNGSLTPKEALHEAS 219

[Close]
BLAST of CsGy3G018860 vs. TAIR10
Match: ATCG00740.1 (RNA polymerase subunit alpha)

HSP 1 Score: 189.5 bits (480), Expect = 1.7e-48
Identity = 87/112 (77.68%), Postives = 99/112 (88.39%), Query Frame = 0 

Query: 19  LIVKGPGCVTAQDIILPPSVEIVDNTQHIANLMEPINLCIELKIERNRGYHIQTPNNFQD 78
           + V+GPG +TA+DIILPP+VEI+DNTQHIA L EPI+LCIELKIERNRGY ++  NNF+D
Sbjct: 108 ICVQGPGYITARDIILPPAVEIIDNTQHIATLTEPIDLCIELKIERNRGYSLKMSNNFED 167

Query: 79  ASYPMDAIFMPVRNVNHSIHSYVNGNEKQEILFLEIWTNGSLTPKEALHNFS 131
            SYP+DA+FMPV N NHSIHSY NGNEKQEILFLEIWTNGSLTPKEALH  S
Sbjct: 168 RSYPIDAVFMPVENANHSIHSYGNGNEKQEILFLEIWTNGSLTPKEALHQAS 219

[Close]
BLAST of CsGy3G018860 vs. Swiss-Prot
Match: sp|Q4VZK3|RPOA_CUCSA (DNA-directed RNA polymerase subunit alpha OS=Cucumis sativus OX=3659 GN=rpoA PE=3 SV=1)

HSP 1 Score: 227.6 bits (579), Expect = 1.0e-58
Identity = 108/112 (96.43%), Postives = 109/112 (97.32%), Query Frame = 0 

Query: 19  LIVKGPGCVTAQDIILPPSVEIVDNTQHIANLMEPINLCIELKIERNRGYHIQTPNNFQD 78
           + VKGPGCVTAQDIILPPSVEIVDNTQHIANLMEPINLCIELKIERNRGYHIQTPNNFQD
Sbjct: 108 ICVKGPGCVTAQDIILPPSVEIVDNTQHIANLMEPINLCIELKIERNRGYHIQTPNNFQD 167

Query: 79  ASYPMDAIFMPVRNVNHSIHSYVNGNEKQEILFLEIWTNGSLTPKEALHNFS 131
           ASYPMDAIFMPVRNVNHSIHSYVNGNEKQEILFLEIWTNGSLTPKEALH  S
Sbjct: 168 ASYPMDAIFMPVRNVNHSIHSYVNGNEKQEILFLEIWTNGSLTPKEALHEAS 219

[Close]
BLAST of CsGy3G018860 vs. Swiss-Prot
Match: sp|Q9MTJ3|RPOA_OENEH (DNA-directed RNA polymerase subunit alpha OS=Oenothera elata subsp. hookeri OX=85636 GN=rpoA PE=3 SV=2)

HSP 1 Score: 204.5 bits (519), Expect = 9.5e-52
Identity = 94/112 (83.93%), Postives = 104/112 (92.86%), Query Frame = 0 

Query: 19  LIVKGPGCVTAQDIILPPSVEIVDNTQHIANLMEPINLCIELKIERNRGYHIQTPNNFQD 78
           + VKGPGCVTAQDI+LPPSVEI+DNTQHIA+LMEPI+LCI L+IERNRGYHI++PNNFQD
Sbjct: 108 ICVKGPGCVTAQDILLPPSVEIIDNTQHIASLMEPIHLCIGLQIERNRGYHIKSPNNFQD 167

Query: 79  ASYPMDAIFMPVRNVNHSIHSYVNGNEKQEILFLEIWTNGSLTPKEALHNFS 131
            SYP+DA+FMPVRN NHSIHSY N NEKQEILFLEIWTNGSLTPKEALH  S
Sbjct: 168 GSYPIDAVFMPVRNANHSIHSYGNQNEKQEILFLEIWTNGSLTPKEALHEAS 219

[Close]
BLAST of CsGy3G018860 vs. Swiss-Prot
Match: sp|Q49KW6|RPOA_EUCGG (DNA-directed RNA polymerase subunit alpha OS=Eucalyptus globulus subsp. globulus OX=71271 GN=rpoA PE=3 SV=1)

HSP 1 Score: 204.1 bits (518), Expect = 1.2e-51
Identity = 96/112 (85.71%), Postives = 102/112 (91.07%), Query Frame = 0 

Query: 19  LIVKGPGCVTAQDIILPPSVEIVDNTQHIANLMEPINLCIELKIERNRGYHIQTPNNFQD 78
           + VKGPGCVTAQDIILP SVEIVDNTQ+IANL EPINLCI L+IERNRGYHI+TP NFQD
Sbjct: 108 ICVKGPGCVTAQDIILPTSVEIVDNTQYIANLTEPINLCIGLQIERNRGYHIKTPKNFQD 167

Query: 79  ASYPMDAIFMPVRNVNHSIHSYVNGNEKQEILFLEIWTNGSLTPKEALHNFS 131
            SYP+DA+FMPVRN NHSIHSY NGNEKQEILFLEIWTNGSLTPKEALH  S
Sbjct: 168 GSYPIDAVFMPVRNANHSIHSYGNGNEKQEILFLEIWTNGSLTPKEALHEAS 219

[Close]
BLAST of CsGy3G018860 vs. Swiss-Prot
Match: sp|Q09WY5|RPOA_MORIN (DNA-directed RNA polymerase subunit alpha OS=Morus indica OX=248361 GN=rpoA PE=3 SV=1)

HSP 1 Score: 203.8 bits (517), Expect = 1.6e-51
Identity = 96/112 (85.71%), Postives = 102/112 (91.07%), Query Frame = 0 

Query: 19  LIVKGPGCVTAQDIILPPSVEIVDNTQHIANLMEPINLCIELKIERNRGYHIQTPNNFQD 78
           + VKGPG VTAQDIILPPSVEIVDNTQHIANL EPI LCIEL+IERNRGY I+TPNNFQ+
Sbjct: 108 ICVKGPGYVTAQDIILPPSVEIVDNTQHIANLTEPITLCIELQIERNRGYRIKTPNNFQN 167

Query: 79  ASYPMDAIFMPVRNVNHSIHSYVNGNEKQEILFLEIWTNGSLTPKEALHNFS 131
            SYP+DA+FMPVRN NHSIHSYVNGNE QEILFLEIWTNGSLTPKEALH  S
Sbjct: 168 GSYPIDAVFMPVRNANHSIHSYVNGNENQEILFLEIWTNGSLTPKEALHEAS 219

[Close]
BLAST of CsGy3G018860 vs. Swiss-Prot
Match: sp|Q2PMQ3|RPOA_SOYBN (DNA-directed RNA polymerase subunit alpha OS=Glycine max OX=3847 GN=rpoA PE=3 SV=1)

HSP 1 Score: 200.3 bits (508), Expect = 1.8e-50
Identity = 95/109 (87.16%), Postives = 100/109 (91.74%), Query Frame = 0 

Query: 22  KGPGCVTAQDIILPPSVEIVDNTQHIANLMEPINLCIELKIERNRGYHIQTPNNFQDASY 81
           KGPG VTAQDIILPPSVEIVDNTQHIAN+ EP+NLCIELKIERNRGY I+T  NFQD SY
Sbjct: 111 KGPGYVTAQDIILPPSVEIVDNTQHIANVTEPVNLCIELKIERNRGYRIKTLKNFQDGSY 170

Query: 82  PMDAIFMPVRNVNHSIHSYVNGNEKQEILFLEIWTNGSLTPKEALHNFS 131
           P+DA FMPVRNVNHSIHSYVNGNEKQEILFLEIWTNGSLTPKEAL+  S
Sbjct: 171 PIDATFMPVRNVNHSIHSYVNGNEKQEILFLEIWTNGSLTPKEALYEAS 219

[Close]
BLAST of CsGy3G018860 vs. TrEMBL
Match: tr|A0A218KG62|A0A218KG62_CUCSA (DNA-directed RNA polymerase subunit alpha OS=Cucumis sativus var. hardwickii OX=319220 GN=rpoA PE=3 SV=1)

HSP 1 Score: 227.6 bits (579), Expect = 2.1e-56
Identity = 108/112 (96.43%), Postives = 109/112 (97.32%), Query Frame = 0 

Query: 19  LIVKGPGCVTAQDIILPPSVEIVDNTQHIANLMEPINLCIELKIERNRGYHIQTPNNFQD 78
           + VKGPGCVTAQDIILPPSVEIVDNTQHIANLMEPINLCIELKIERNRGYHIQTPNNFQD
Sbjct: 108 ICVKGPGCVTAQDIILPPSVEIVDNTQHIANLMEPINLCIELKIERNRGYHIQTPNNFQD 167

Query: 79  ASYPMDAIFMPVRNVNHSIHSYVNGNEKQEILFLEIWTNGSLTPKEALHNFS 131
           ASYPMDAIFMPVRNVNHSIHSYVNGNEKQEILFLEIWTNGSLTPKEALH  S
Sbjct: 168 ASYPMDAIFMPVRNVNHSIHSYVNGNEKQEILFLEIWTNGSLTPKEALHEAS 219

[Close]
BLAST of CsGy3G018860 vs. TrEMBL
Match: tr|A0A1X9Q1P4|A0A1X9Q1P4_CUCSA (DNA-directed RNA polymerase subunit alpha OS=Cucumis sativus OX=3659 GN=rpoA PE=3 SV=1)

HSP 1 Score: 227.6 bits (579), Expect = 2.1e-56
Identity = 108/112 (96.43%), Postives = 109/112 (97.32%), Query Frame = 0 

Query: 19  LIVKGPGCVTAQDIILPPSVEIVDNTQHIANLMEPINLCIELKIERNRGYHIQTPNNFQD 78
           + VKGPGCVTAQDIILPPSVEIVDNTQHIANLMEPINLCIELKIERNRGYHIQTPNNFQD
Sbjct: 108 ICVKGPGCVTAQDIILPPSVEIVDNTQHIANLMEPINLCIELKIERNRGYHIQTPNNFQD 167

Query: 79  ASYPMDAIFMPVRNVNHSIHSYVNGNEKQEILFLEIWTNGSLTPKEALHNFS 131
           ASYPMDAIFMPVRNVNHSIHSYVNGNEKQEILFLEIWTNGSLTPKEALH  S
Sbjct: 168 ASYPMDAIFMPVRNVNHSIHSYVNGNEKQEILFLEIWTNGSLTPKEALHEAS 219

[Close]
BLAST of CsGy3G018860 vs. TrEMBL
Match: tr|A0A1P8C7R7|A0A1P8C7R7_9ROSI (DNA-directed RNA polymerase subunit alpha OS=Cucumis x hytivus OX=442738 GN=rpoA PE=3 SV=1)

HSP 1 Score: 227.6 bits (579), Expect = 2.1e-56
Identity = 108/112 (96.43%), Postives = 109/112 (97.32%), Query Frame = 0 

Query: 19  LIVKGPGCVTAQDIILPPSVEIVDNTQHIANLMEPINLCIELKIERNRGYHIQTPNNFQD 78
           + VKGPGCVTAQDIILPPSVEIVDNTQHIANLMEPINLCIELKIERNRGYHIQTPNNFQD
Sbjct: 108 ICVKGPGCVTAQDIILPPSVEIVDNTQHIANLMEPINLCIELKIERNRGYHIQTPNNFQD 167

Query: 79  ASYPMDAIFMPVRNVNHSIHSYVNGNEKQEILFLEIWTNGSLTPKEALHNFS 131
           ASYPMDAIFMPVRNVNHSIHSYVNGNEKQEILFLEIWTNGSLTPKEALH  S
Sbjct: 168 ASYPMDAIFMPVRNVNHSIHSYVNGNEKQEILFLEIWTNGSLTPKEALHEAS 219

[Close]
BLAST of CsGy3G018860 vs. TrEMBL
Match: tr|W8E706|W8E706_9ROSI (DNA-directed RNA polymerase subunit alpha OS=Cucumis hystrix OX=396994 GN=rpoA PE=3 SV=1)

HSP 1 Score: 227.6 bits (579), Expect = 2.1e-56
Identity = 108/112 (96.43%), Postives = 109/112 (97.32%), Query Frame = 0 

Query: 19  LIVKGPGCVTAQDIILPPSVEIVDNTQHIANLMEPINLCIELKIERNRGYHIQTPNNFQD 78
           + VKGPGCVTAQDIILPPSVEIVDNTQHIANLMEPINLCIELKIERNRGYHIQTPNNFQD
Sbjct: 108 ICVKGPGCVTAQDIILPPSVEIVDNTQHIANLMEPINLCIELKIERNRGYHIQTPNNFQD 167

Query: 79  ASYPMDAIFMPVRNVNHSIHSYVNGNEKQEILFLEIWTNGSLTPKEALHNFS 131
           ASYPMDAIFMPVRNVNHSIHSYVNGNEKQEILFLEIWTNGSLTPKEALH  S
Sbjct: 168 ASYPMDAIFMPVRNVNHSIHSYVNGNEKQEILFLEIWTNGSLTPKEALHEAS 219

[Close]
BLAST of CsGy3G018860 vs. TrEMBL
Match: tr|A0A249RXS6|A0A249RXS6_CUCME (DNA-directed RNA polymerase subunit alpha OS=Cucumis melo subsp. agrestis OX=217619 GN=rpoA PE=3 SV=1)

HSP 1 Score: 223.8 bits (569), Expect = 3.0e-55
Identity = 106/112 (94.64%), Postives = 107/112 (95.54%), Query Frame = 0 

Query: 19  LIVKGPGCVTAQDIILPPSVEIVDNTQHIANLMEPINLCIELKIERNRGYHIQTPNNFQD 78
           + VKGPGCVTAQDIILPPSVEIVDNTQHIANL EPIN CIELKIERNRGYHIQTPNNFQD
Sbjct: 108 ICVKGPGCVTAQDIILPPSVEIVDNTQHIANLTEPINFCIELKIERNRGYHIQTPNNFQD 167

Query: 79  ASYPMDAIFMPVRNVNHSIHSYVNGNEKQEILFLEIWTNGSLTPKEALHNFS 131
           ASYPMDAIFMPVRNVNHSIHSYVNGNEKQEILFLEIWTNGSLTPKEALH  S
Sbjct: 168 ASYPMDAIFMPVRNVNHSIHSYVNGNEKQEILFLEIWTNGSLTPKEALHEAS 219

The following BLAST results are available for this feature:
BLAST of CsGy3G018860 vs. NCBI nr
Match NameE-valueIdentityDescription
YP_009346515.13.2e-5696.43RNA polymerase alpha subunit (chloroplast) [Cucumis x hytivus] >AOW71126.1 RNA p... [more]
YP_247632.13.2e-5696.43RNA polymerase alpha subunit [Cucumis sativus] >YP_009004075.1 RNA polymerase al... [more]
YP_004841815.14.6e-5594.64RNA polymerase alpha subunit [Cucumis melo subsp. melo] >AEM76924.1 RNA polymera... [more]
YP_009456178.11.1e-5392.86RNA polymerase alpha subunit (chloroplast) [Lagenaria siceraria] >AHM88699.1 RNA... [more]
AHM88758.11.1e-5392.86RNA polymerase alpha subunit, partial (chloroplast) [Lagenaria siceraria][more]
BLAST of CsGy3G018860 vs. TAIR10
Match NameE-valueIdentityDescription
ATCG00740.11.7e-4877.68RNA polymerase subunit alpha[more]
BLAST of CsGy3G018860 vs. Swiss-Prot
Match NameE-valueIdentityDescription
sp|Q4VZK3|RPOA_CUCSA1.0e-5896.43DNA-directed RNA polymerase subunit alpha OS=Cucumis sativus OX=3659 GN=rpoA PE=... [more]
sp|Q9MTJ3|RPOA_OENEH9.5e-5283.93DNA-directed RNA polymerase subunit alpha OS=Oenothera elata subsp. hookeri OX=8... [more]
sp|Q49KW6|RPOA_EUCGG1.2e-5185.71DNA-directed RNA polymerase subunit alpha OS=Eucalyptus globulus subsp. globulus... [more]
sp|Q09WY5|RPOA_MORIN1.6e-5185.71DNA-directed RNA polymerase subunit alpha OS=Morus indica OX=248361 GN=rpoA PE=3... [more]
sp|Q2PMQ3|RPOA_SOYBN1.8e-5087.16DNA-directed RNA polymerase subunit alpha OS=Glycine max OX=3847 GN=rpoA PE=3 SV... [more]
BLAST of CsGy3G018860 vs. TrEMBL
Match NameE-valueIdentityDescription
tr|A0A218KG62|A0A218KG62_CUCSA2.1e-5696.43DNA-directed RNA polymerase subunit alpha OS=Cucumis sativus var. hardwickii OX=... [more]
tr|A0A1X9Q1P4|A0A1X9Q1P4_CUCSA2.1e-5696.43DNA-directed RNA polymerase subunit alpha OS=Cucumis sativus OX=3659 GN=rpoA PE=... [more]
tr|A0A1P8C7R7|A0A1P8C7R7_9ROSI2.1e-5696.43DNA-directed RNA polymerase subunit alpha OS=Cucumis x hytivus OX=442738 GN=rpoA... [more]
tr|W8E706|W8E706_9ROSI2.1e-5696.43DNA-directed RNA polymerase subunit alpha OS=Cucumis hystrix OX=396994 GN=rpoA P... [more]
tr|A0A249RXS6|A0A249RXS6_CUCME3.0e-5594.64DNA-directed RNA polymerase subunit alpha OS=Cucumis melo subsp. agrestis OX=217... [more]
Annotated Terms
The following terms have been associated with this gene:
Vocabulary: Molecular Function
TermDefinition
GO:0003677DNA binding
GO:0003899DNA-directed RNA polymerase activity
GO:0046983protein dimerization activity
Vocabulary: Biological Process
TermDefinition
GO:0006351transcription, DNA-templated
Vocabulary: INTERPRO
TermDefinition
IPR036603RBP11-like
IPR011773DNA-dir_RpoA
IPR011263DNA-dir_RNA_pol_RpoA/D/Rpb3
IPR036643RNApol_insert_sf
IPR011262DNA-dir_RNA_pol_insert
GO Annotation
GO Assignments
This gene is annotated with the following GO terms.
Category Term Accession Term Name
biological_process GO:0006351 transcription, DNA-templated
cellular_component GO:0009507 chloroplast
molecular_function GO:0003677 DNA binding
molecular_function GO:0003899 DNA-directed RNA polymerase activity
molecular_function GO:0046983 protein dimerization activity
Relationships

The following mRNA feature(s) are a part of this gene:

Feature NameUnique NameType
CsGy3G018860.1CsGy3G018860.1mRNA


InterPro
Analysis Name: InterPro Annotations of cucumber Gy14 genome (v2)
Date Performed: 2018-09-25
IPR TermIPR DescriptionSourceSource TermSource DescriptionAlignment
NoneNo IPR availableCOILSCoilCoilcoord: 144..165
NoneNo IPR availableMOBIDB_LITEmobidb-litedisorder_predictioncoord: 142..169
NoneNo IPR availableMOBIDB_LITEmobidb-litedisorder_predictioncoord: 142..162
IPR011262DNA-directed RNA polymerase, insert domainPFAMPF01000RNA_pol_A_baccoord: 12..69
e-value: 1.4E-8
score: 35.0
IPR036643DNA-directed RNA polymerase, insert domain superfamilyGENE3DG3DSA:2.170.120.12coord: 3..87
e-value: 8.6E-15
score: 56.8
IPR036643DNA-directed RNA polymerase, insert domain superfamilySUPERFAMILYSSF56553Insert subdomain of RNA polymerase alpha subunitcoord: 10..88
IPR011263DNA-directed RNA polymerase, RpoA/D/Rpb3-typePFAMPF01193RNA_pol_Lcoord: 64..127
e-value: 2.0E-5
score: 23.8
IPR011773DNA-directed RNA polymerase, alpha subunitPANTHERPTHR32108FAMILY NOT NAMEDcoord: 17..162
IPR036603RNA polymerase, RBP11-like subunitSUPERFAMILYSSF55257RBP11-like subunits of RNA polymerasecoord: 89..128

Synteny
The following gene(s) are orthologous to this gene:
GeneOrthologueOrganismBlock
CsGy3G018860CsaV3_3G019080Cucumber (Chinese Long) v3cgybcucB117
The following gene(s) are paralogous to this gene:

None

The following block(s) are covering this gene:
GeneOrganismBlock
CsGy3G018860Cucurbita pepo (Zucchini)cgybcpeB317
CsGy3G018860Cucurbita pepo (Zucchini)cgybcpeB362
CsGy3G018860Cucumber (Chinese Long) v2cgybcuB109
CsGy3G018860Bottle gourd (USVL1VR-Ls)cgyblsiB198
CsGy3G018860Melon (DHL92) v3.5.1cgybmeB210
CsGy3G018860Melon (DHL92) v3.6.1cgybmedB215
CsGy3G018860Watermelon (Charleston Gray)cgybwcgB214
CsGy3G018860Watermelon (97103) v1cgybwmB229
CsGy3G018860Wild cucumber (PI 183967)cgybcpiB110
CsGy3G018860Silver-seed gourdcarcgybB0064
CsGy3G018860Silver-seed gourdcarcgybB0065
CsGy3G018860Silver-seed gourdcarcgybB0650
CsGy3G018860Watermelon (97103) v2cgybwmbB206
CsGy3G018860Wax gourdcgybwgoB271
CsGy3G018860Cucurbita maxima (Rimu)cgybcmaB332
CsGy3G018860Cucurbita maxima (Rimu)cgybcmaB410
CsGy3G018860Cucurbita moschata (Rifu)cgybcmoB301
CsGy3G018860Cucurbita moschata (Rifu)cgybcmoB386