Cp4.1LG14g06060 (gene) Cucurbita pepo (Zucchini)

Overview
NameCp4.1LG14g06060
Typegene
OrganismCucurbita pepo (Cucurbita pepo (Zucchini))
DescriptionDNA-directed RNA polymerase I, II, and III subunit RPABC2
LocationCp4.1LG14 : 657848 .. 660873 (+)
Genome Viewer
Sequences
The following sequences are available for this feature:

Gene sequence (with intron)

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

mRNA sequence

AACGGGTGATAATACAAAAGTTGAGGGAGTAACCTGATATTTTAAAGAACTGAGCCGCTATTTTTATTATATATTCATACCGCGTTCGAGTTGAGGCGCGCCGTGGTCGTTTACTTCTAAAGTTCTGTGACTGAGGGTTTTAGGGAGTAACCAGAGAGCGCGGCAACAGTTTCTCCATCGAACATCAATGGCGGACGATGATTACAATGACCTCGACATGGGATATGACGATGAGCCACCAGAACCAGAATTGGAGGAAGGTGCTGAAGAAGAATTGGATAATAATAACAATGATGATGTTCCTGGTGAACCTGTTGAAGCAGAGGAAAAGGAAGATGAAGAACCTGTTGAACGTGTGCGTAAAACCTCAAAATTTATGACAAAATATGAACGTGCTAGAATTTTGGGTACACGTGCCCTCCAAATCAGCATGAATGCTCCTGTGATGGTTGAATTGGAGGGCGAGACTGATCCACTTGAGATTGCAATGAAGGAGCTTCGTGAGCGGAAGATACCCTTCACCATCCGTCGCTACCTGCCAGATGGAAGTTATGAAGACTGGGGCGTTGATGAACTGATTGTGGAGGACTCTTGGAAGAGGCAAGTTGGTGGCGCTTGACTGATCTTTAGTTAGTTGTGTGGGCGTCACCATATGTGAGATGATAGTTAGAACTACATAGCCATTAGGTCACGGTGTTCCCATTTATGCAGCTTGTGAAAACACTACTGTTTTGTTGCATAACTCTACTCTATAATATATTGGAAAGGAATCACTATTGACAAACACCTATTTATGACTATAAACCATGCCATTAACACTGGATATTCTGTAATCTTCAATTGTGCGTTTCTTAAAAATTGCTTTTCAACGTTAA

Coding sequence (CDS)

ATGGCGGACGATGATTACAATGACCTCGACATGGGATATGACGATGAGCCACCAGAACCAGAATTGGAGGAAGGTGCTGAAGAAGAATTGGATAATAATAACAATGATGATGTTCCTGGTGAACCTGTTGAAGCAGAGGAAAAGGAAGATGAAGAACCTGTTGAACGTGTGCGTAAAACCTCAAAATTTATGACAAAATATGAACGTGCTAGAATTTTGGGTACACGTGCCCTCCAAATCAGCATGAATGCTCCTGTGATGGTTGAATTGGAGGGCGAGACTGATCCACTTGAGATTGCAATGAAGGAGCTTCGTGAGCGGAAGATACCCTTCACCATCCGTCGCTACCTGCCAGATGGAAGTTATGAAGACTGGGGCGTTGATGAACTGATTGTGGAGGACTCTTGGAAGAGGCAAGTTGGTGGCGCTTGA

Protein sequence

MADDDYNDLDMGYDDEPPEPELEEGAEEELDNNNNDDVPGEPVEAEEKEDEEPVERVRKTSKFMTKYERARILGTRALQISMNAPVMVELEGETDPLEIAMKELRERKIPFTIRRYLPDGSYEDWGVDELIVEDSWKRQVGGA
Homology
[Close]
BLAST of Cp4.1LG14g06060 vs. Swiss-Prot
Match: RPD6A_ARATH (DNA-directed RNA polymerases II, IV and V subunit 6A OS=Arabidopsis thaliana GN=NRPB6A PE=1 SV=1)

HSP 1 Score: 233.0 bits (593), Expect = 2.0e-60
Identity = 118/143 (82.52%), Postives = 133/143 (93.01%), Query Frame = 1 

Query: 1   MADDDYNDLD-MGYDDEPPEPELEEGAEEELDNNNNDDVPGEPVEAEEKEDEEPVERVRK 60
           MAD+DYND+D +GY+DEP EPE+EEG EE+++   NDDV GEP+EAE+K + EPV+R RK
Sbjct: 1   MADEDYNDVDDLGYEDEPAEPEIEEGVEEDVEMKENDDVNGEPIEAEDKVETEPVQRPRK 60

Query: 61  TSKFMTKYERARILGTRALQISMNAPVMVELEGETDPLEIAMKELRERKIPFTIRRYLPD 120
           TSKFMTKYERARILGTRALQISMNAPVMVELEGETDPLEIAMKELR+RKIPFTIRRYLPD
Sbjct: 61  TSKFMTKYERARILGTRALQISMNAPVMVELEGETDPLEIAMKELRQRKIPFTIRRYLPD 120

Query: 121 GSYEDWGVDELIVEDSWKRQVGG 143
           GS+E+WGVDELIVEDSWKRQVGG
Sbjct: 121 GSFEEWGVDELIVEDSWKRQVGG 143

[Close]
BLAST of Cp4.1LG14g06060 vs. Swiss-Prot
Match: RPB6B_ARATH (DNA-directed RNA polymerases II and V subunit 6B OS=Arabidopsis thaliana GN=NRPB6B PE=1 SV=1)

HSP 1 Score: 224.6 bits (571), Expect = 7.1e-58
Identity = 116/143 (81.12%), Postives = 129/143 (90.21%), Query Frame = 1 

Query: 1   MADDDYNDLD-MGYDDEPPEPELEEGAEEELDNNNNDDVPGEPVEAEEKEDEEPVERVRK 60
           MADDDYN++D +GY+DEP EPE+EEG EE+ D   NDDV  +P+E E+K + EPV+R RK
Sbjct: 1   MADDDYNEVDDLGYEDEPAEPEIEEGVEEDADIKENDDVNVDPLETEDKVETEPVQRPRK 60

Query: 61  TSKFMTKYERARILGTRALQISMNAPVMVELEGETDPLEIAMKELRERKIPFTIRRYLPD 120
           TSKFMTKYERARILGTRALQISMNAPVMVELEGETDPLEIAMKELR+RKIPFTIRRYLPD
Sbjct: 61  TSKFMTKYERARILGTRALQISMNAPVMVELEGETDPLEIAMKELRQRKIPFTIRRYLPD 120

Query: 121 GSYEDWGVDELIVEDSWKRQVGG 143
            SYE+WGVDELIVEDSWKRQVGG
Sbjct: 121 MSYEEWGVDELIVEDSWKRQVGG 143

[Close]
BLAST of Cp4.1LG14g06060 vs. Swiss-Prot
Match: RPAB2_MOUSE (DNA-directed RNA polymerases I, II, and III subunit RPABC2 OS=Mus musculus GN=Polr2f PE=2 SV=1)

HSP 1 Score: 128.3 bits (321), Expect = 6.9e-29
Identity = 80/133 (60.15%), Postives = 91/133 (68.42%), Query Frame = 1 

Query: 4   DDYNDL--DMGYDDEPPEPELEEGAEEELDNNNNDDVPGEPVEAEEKEDEEPVERVRKTS 63
           DD++D+  D G DD        E AEEE   N      GE  +A +K         R T+
Sbjct: 11  DDFDDVEEDEGLDDL-------ENAEEEGQENVEILPSGERPQANQK---------RITT 70

Query: 64  KFMTKYERARILGTRALQISMNAPVMVELEGETDPLEIAMKELRERKIPFTIRRYLPDGS 123
            +MTKYERAR+LGTRALQI+M APVMVELEGETDPL IAMKEL+ RKIP  IRRYLPDGS
Sbjct: 71  PYMTKYERARVLGTRALQIAMCAPVMVELEGETDPLLIAMKELKARKIPIIIRRYLPDGS 127

Query: 124 YEDWGVDELIVED 135
           YEDWGVDELI+ D
Sbjct: 131 YEDWGVDELIISD 127

[Close]
BLAST of Cp4.1LG14g06060 vs. Swiss-Prot
Match: RPAB2_RAT (DNA-directed RNA polymerases I, II, and III subunit RPABC2 OS=Rattus norvegicus GN=Polr2f PE=1 SV=1)

HSP 1 Score: 128.3 bits (321), Expect = 6.9e-29
Identity = 80/133 (60.15%), Postives = 91/133 (68.42%), Query Frame = 1 

Query: 4   DDYNDL--DMGYDDEPPEPELEEGAEEELDNNNNDDVPGEPVEAEEKEDEEPVERVRKTS 63
           DD++D+  D G DD        E AEEE   N      GE  +A +K         R T+
Sbjct: 11  DDFDDVEEDEGLDDL-------ENAEEEGQENVEILPSGERPQANQK---------RITT 70

Query: 64  KFMTKYERARILGTRALQISMNAPVMVELEGETDPLEIAMKELRERKIPFTIRRYLPDGS 123
            +MTKYERAR+LGTRALQI+M APVMVELEGETDPL IAMKEL+ RKIP  IRRYLPDGS
Sbjct: 71  PYMTKYERARVLGTRALQIAMCAPVMVELEGETDPLLIAMKELKARKIPIIIRRYLPDGS 127

Query: 124 YEDWGVDELIVED 135
           YEDWGVDELI+ D
Sbjct: 131 YEDWGVDELIISD 127

[Close]
BLAST of Cp4.1LG14g06060 vs. Swiss-Prot
Match: RPAB2_CRIGR (DNA-directed RNA polymerases I, II, and III subunit RPABC2 OS=Cricetulus griseus GN=POLR2F PE=2 SV=1)

HSP 1 Score: 127.9 bits (320), Expect = 9.1e-29
Identity = 80/133 (60.15%), Postives = 91/133 (68.42%), Query Frame = 1 

Query: 4   DDYNDL--DMGYDDEPPEPELEEGAEEELDNNNNDDVPGEPVEAEEKEDEEPVERVRKTS 63
           DD++D+  D G DD        E AEEE   N      GE  +A +K         R T+
Sbjct: 11  DDFDDVEEDEGLDDL-------ENAEEEGQENVEILPSGERPQANQK---------RITT 70

Query: 64  KFMTKYERARILGTRALQISMNAPVMVELEGETDPLEIAMKELRERKIPFTIRRYLPDGS 123
            +MTKYERAR+LGTRALQI+M APVMVELEGETDPL IAMKEL+ RKIP  IRRYLPDGS
Sbjct: 71  PYMTKYERARVLGTRALQIAMCAPVMVELEGETDPLLIAMKELKARKIPIIIRRYLPDGS 127

Query: 124 YEDWGVDELIVED 135
           YEDWGVDELI+ D
Sbjct: 131 YEDWGVDELIITD 127

[Close]
BLAST of Cp4.1LG14g06060 vs. TrEMBL
Match: A0A0A0L8L8_CUCSA (Uncharacterized protein OS=Cucumis sativus GN=Csa_3G180370 PE=3 SV=1)

HSP 1 Score: 271.9 bits (694), Expect = 4.3e-70
Identity = 136/143 (95.10%), Postives = 141/143 (98.60%), Query Frame = 1 

Query: 1   MADDDYNDLDMGYDDEPPEPELEEGAEEELDNNNNDDVPGEPVEAEEKEDEEPVERVRKT 60
           MADDDYNDLDMGY+DEPPEPE+EEGAEEEL+NNNNDD+PGEPVEAEEKEDEEP+ R RKT
Sbjct: 1   MADDDYNDLDMGYEDEPPEPEIEEGAEEELENNNNDDIPGEPVEAEEKEDEEPIVRARKT 60

Query: 61  SKFMTKYERARILGTRALQISMNAPVMVELEGETDPLEIAMKELRERKIPFTIRRYLPDG 120
           SKFMTKYERARILGTRALQISMNAPVMVELEGETDPLEIAMKELRERKIPFTIRRYLPDG
Sbjct: 61  SKFMTKYERARILGTRALQISMNAPVMVELEGETDPLEIAMKELRERKIPFTIRRYLPDG 120

Query: 121 SYEDWGVDELIVEDSWKRQVGGA 144
           SYEDWGVDELIVEDSWKRQVGGA
Sbjct: 121 SYEDWGVDELIVEDSWKRQVGGA 143

[Close]
BLAST of Cp4.1LG14g06060 vs. TrEMBL
Match: A0A0A0LGM1_CUCSA (Uncharacterized protein OS=Cucumis sativus GN=Csa_3G877600 PE=3 SV=1)

HSP 1 Score: 264.6 bits (675), Expect = 6.9e-68
Identity = 137/143 (95.80%), Postives = 139/143 (97.20%), Query Frame = 1 

Query: 1   MADDDYNDLDMGYDDEPPEPELEEGAEEELDNNNNDDVPGEPVEAEEKEDEEPVERVRKT 60
           MADDDYNDLDMGY+DEPPEPE+EEGAEEELD N  DDVPGEPVEAE KEDEEPVERVRKT
Sbjct: 1   MADDDYNDLDMGYEDEPPEPEIEEGAEEELDTNT-DDVPGEPVEAEGKEDEEPVERVRKT 60

Query: 61  SKFMTKYERARILGTRALQISMNAPVMVELEGETDPLEIAMKELRERKIPFTIRRYLPDG 120
           SKFMTKYERARILGTRALQISMNAPVMVELEGETDPLEIAMKELRERKIPFTIRRYLPDG
Sbjct: 61  SKFMTKYERARILGTRALQISMNAPVMVELEGETDPLEIAMKELRERKIPFTIRRYLPDG 120

Query: 121 SYEDWGVDELIVEDSWKRQVGGA 144
           SYEDWGVDELIVEDSWKRQVGGA
Sbjct: 121 SYEDWGVDELIVEDSWKRQVGGA 142

[Close]
BLAST of Cp4.1LG14g06060 vs. TrEMBL
Match: W9S7H0_9ROSA (DNA-directed RNA polymerases I, II, and III subunit RPABC2 OS=Morus notabilis GN=L484_014541 PE=3 SV=1)

HSP 1 Score: 255.8 bits (652), Expect = 3.2e-65
Identity = 127/142 (89.44%), Postives = 136/142 (95.77%), Query Frame = 1 

Query: 1   MADDDYNDLDMGYDDEPPEPELEEGAEEELDNNNNDDVPGEPVEAEEKEDEEPVERVRKT 60
           MADDDY ++DMGY+DEPPEPE+EEGAEE++DNNNNDD  GEP+EAE+K DEEPVE  RKT
Sbjct: 1   MADDDYTEMDMGYEDEPPEPEIEEGAEEDVDNNNNDDTGGEPIEAEDKADEEPVEHPRKT 60

Query: 61  SKFMTKYERARILGTRALQISMNAPVMVELEGETDPLEIAMKELRERKIPFTIRRYLPDG 120
           SK+MTKYERARILGTRALQISMNAPVMVELEGETDPLEIAMKELRERKIPFTIRRYLPDG
Sbjct: 61  SKYMTKYERARILGTRALQISMNAPVMVELEGETDPLEIAMKELRERKIPFTIRRYLPDG 120

Query: 121 SYEDWGVDELIVEDSWKRQVGG 143
           SYEDWGVDELIVEDSWKRQVGG
Sbjct: 121 SYEDWGVDELIVEDSWKRQVGG 142

[Close]
BLAST of Cp4.1LG14g06060 vs. TrEMBL
Match: A0A061G0M3_THECC (DNA-directed RNA polymerase II subunit protein isoform 1 OS=Theobroma cacao GN=TCM_015104 PE=3 SV=1)

HSP 1 Score: 252.7 bits (644), Expect = 2.7e-64
Identity = 124/142 (87.32%), Postives = 137/142 (96.48%), Query Frame = 1 

Query: 1   MADDDYNDLDMGYDDEPPEPELEEGAEEELDNNNNDDVPGEPVEAEEKEDEEPVERVRKT 60
           MADDDYND+DMGY+DEPPEPE+EEGAEE+L+NNNNDDVP EP+E EEKE+ +  +++RKT
Sbjct: 1   MADDDYNDMDMGYEDEPPEPEIEEGAEEDLENNNNDDVPVEPIETEEKEEHDSKDKIRKT 60

Query: 61  SKFMTKYERARILGTRALQISMNAPVMVELEGETDPLEIAMKELRERKIPFTIRRYLPDG 120
           SK+MTKYERARILGTRALQISMNAPVMVELEGE+DPLEIAMKELRERKIPFTIRRYLPDG
Sbjct: 61  SKYMTKYERARILGTRALQISMNAPVMVELEGESDPLEIAMKELRERKIPFTIRRYLPDG 120

Query: 121 SYEDWGVDELIVEDSWKRQVGG 143
           SYEDWGVDELIVEDSWKRQVGG
Sbjct: 121 SYEDWGVDELIVEDSWKRQVGG 142

[Close]
BLAST of Cp4.1LG14g06060 vs. TrEMBL
Match: B9I4C9_POPTR (Uncharacterized protein OS=Populus trichocarpa GN=POPTR_0012s13610g PE=3 SV=2)

HSP 1 Score: 252.3 bits (643), Expect = 3.5e-64
Identity = 125/142 (88.03%), Postives = 136/142 (95.77%), Query Frame = 1 

Query: 1   MADDDYNDLDMGYDDEPPEPELEEGAEEELDNNNNDDVPGEPVEAEEKEDEEPVERVRKT 60
           MAD+DYND+DMGY+DEPPEPE+EEG EE+ DN+NN+D  GEP+E E+KE++EPVER RKT
Sbjct: 41  MADEDYNDVDMGYEDEPPEPEIEEGVEEDADNDNNEDDKGEPIETEDKEEQEPVERPRKT 100

Query: 61  SKFMTKYERARILGTRALQISMNAPVMVELEGETDPLEIAMKELRERKIPFTIRRYLPDG 120
           SKFMTKYERARILGTRALQISMNAPVMVELEGETDPLEIAMKELRERKIPFTIRRYLPDG
Sbjct: 101 SKFMTKYERARILGTRALQISMNAPVMVELEGETDPLEIAMKELRERKIPFTIRRYLPDG 160

Query: 121 SYEDWGVDELIVEDSWKRQVGG 143
           SYEDWGVDELIVEDSWKRQVGG
Sbjct: 161 SYEDWGVDELIVEDSWKRQVGG 182

[Close]
BLAST of Cp4.1LG14g06060 vs. TAIR10
Match: AT5G51940.1 (AT5G51940.1 RNA polymerase Rpb6)

HSP 1 Score: 233.0 bits (593), Expect = 1.1e-61
Identity = 118/143 (82.52%), Postives = 133/143 (93.01%), Query Frame = 1 

Query: 1   MADDDYNDLD-MGYDDEPPEPELEEGAEEELDNNNNDDVPGEPVEAEEKEDEEPVERVRK 60
           MAD+DYND+D +GY+DEP EPE+EEG EE+++   NDDV GEP+EAE+K + EPV+R RK
Sbjct: 1   MADEDYNDVDDLGYEDEPAEPEIEEGVEEDVEMKENDDVNGEPIEAEDKVETEPVQRPRK 60

Query: 61  TSKFMTKYERARILGTRALQISMNAPVMVELEGETDPLEIAMKELRERKIPFTIRRYLPD 120
           TSKFMTKYERARILGTRALQISMNAPVMVELEGETDPLEIAMKELR+RKIPFTIRRYLPD
Sbjct: 61  TSKFMTKYERARILGTRALQISMNAPVMVELEGETDPLEIAMKELRQRKIPFTIRRYLPD 120

Query: 121 GSYEDWGVDELIVEDSWKRQVGG 143
           GS+E+WGVDELIVEDSWKRQVGG
Sbjct: 121 GSFEEWGVDELIVEDSWKRQVGG 143

[Close]
BLAST of Cp4.1LG14g06060 vs. TAIR10
Match: AT2G04630.1 (AT2G04630.1 RNA polymerase Rpb6)

HSP 1 Score: 224.6 bits (571), Expect = 4.0e-59
Identity = 116/143 (81.12%), Postives = 129/143 (90.21%), Query Frame = 1 

Query: 1   MADDDYNDLD-MGYDDEPPEPELEEGAEEELDNNNNDDVPGEPVEAEEKEDEEPVERVRK 60
           MADDDYN++D +GY+DEP EPE+EEG EE+ D   NDDV  +P+E E+K + EPV+R RK
Sbjct: 1   MADDDYNEVDDLGYEDEPAEPEIEEGVEEDADIKENDDVNVDPLETEDKVETEPVQRPRK 60

Query: 61  TSKFMTKYERARILGTRALQISMNAPVMVELEGETDPLEIAMKELRERKIPFTIRRYLPD 120
           TSKFMTKYERARILGTRALQISMNAPVMVELEGETDPLEIAMKELR+RKIPFTIRRYLPD
Sbjct: 61  TSKFMTKYERARILGTRALQISMNAPVMVELEGETDPLEIAMKELRQRKIPFTIRRYLPD 120

Query: 121 GSYEDWGVDELIVEDSWKRQVGG 143
            SYE+WGVDELIVEDSWKRQVGG
Sbjct: 121 MSYEEWGVDELIVEDSWKRQVGG 143

[Close]
BLAST of Cp4.1LG14g06060 vs. NCBI nr
Match: gi|449446057|ref|XP_004140788.1| (PREDICTED: DNA-directed RNA polymerases II, IV and V subunit 6A [Cucumis sativus])

HSP 1 Score: 271.9 bits (694), Expect = 6.2e-70
Identity = 136/143 (95.10%), Postives = 141/143 (98.60%), Query Frame = 1 

Query: 1   MADDDYNDLDMGYDDEPPEPELEEGAEEELDNNNNDDVPGEPVEAEEKEDEEPVERVRKT 60
           MADDDYNDLDMGY+DEPPEPE+EEGAEEEL+NNNNDD+PGEPVEAEEKEDEEP+ R RKT
Sbjct: 1   MADDDYNDLDMGYEDEPPEPEIEEGAEEELENNNNDDIPGEPVEAEEKEDEEPIVRARKT 60

Query: 61  SKFMTKYERARILGTRALQISMNAPVMVELEGETDPLEIAMKELRERKIPFTIRRYLPDG 120
           SKFMTKYERARILGTRALQISMNAPVMVELEGETDPLEIAMKELRERKIPFTIRRYLPDG
Sbjct: 61  SKFMTKYERARILGTRALQISMNAPVMVELEGETDPLEIAMKELRERKIPFTIRRYLPDG 120

Query: 121 SYEDWGVDELIVEDSWKRQVGGA 144
           SYEDWGVDELIVEDSWKRQVGGA
Sbjct: 121 SYEDWGVDELIVEDSWKRQVGGA 143

[Close]
BLAST of Cp4.1LG14g06060 vs. NCBI nr
Match: gi|659077388|ref|XP_008439178.1| (PREDICTED: DNA-directed RNA polymerases II, IV and V subunit 6A [Cucumis melo])

HSP 1 Score: 271.2 bits (692), Expect = 1.1e-69
Identity = 137/143 (95.80%), Postives = 140/143 (97.90%), Query Frame = 1 

Query: 1   MADDDYNDLDMGYDDEPPEPELEEGAEEELDNNNNDDVPGEPVEAEEKEDEEPVERVRKT 60
           MADDDYNDLDMGY+DEPPEPE+EEGAEEELDN NNDD+ GEPVEAEEKEDEEPVER RKT
Sbjct: 1   MADDDYNDLDMGYEDEPPEPEIEEGAEEELDNTNNDDITGEPVEAEEKEDEEPVERARKT 60

Query: 61  SKFMTKYERARILGTRALQISMNAPVMVELEGETDPLEIAMKELRERKIPFTIRRYLPDG 120
           SKFMTKYERARILGTRALQISMNAPVMVELEGETDPLEIAMKELRERKIPFTIRRYLPDG
Sbjct: 61  SKFMTKYERARILGTRALQISMNAPVMVELEGETDPLEIAMKELRERKIPFTIRRYLPDG 120

Query: 121 SYEDWGVDELIVEDSWKRQVGGA 144
           SYEDWGVDELIVEDSWKRQVGGA
Sbjct: 121 SYEDWGVDELIVEDSWKRQVGGA 143

[Close]
BLAST of Cp4.1LG14g06060 vs. NCBI nr
Match: gi|659132857|ref|XP_008466421.1| (PREDICTED: DNA-directed RNA polymerases II, IV and V subunit 6A-like [Cucumis melo])

HSP 1 Score: 269.6 bits (688), Expect = 3.1e-69
Identity = 139/143 (97.20%), Postives = 141/143 (98.60%), Query Frame = 1 

Query: 1   MADDDYNDLDMGYDDEPPEPELEEGAEEELDNNNNDDVPGEPVEAEEKEDEEPVERVRKT 60
           MADDDYNDLDMGY+DEPPEPE+EEGAEEELD NN DDVPGEPVEAEEKEDEEPVERVRKT
Sbjct: 76  MADDDYNDLDMGYEDEPPEPEIEEGAEEELDTNN-DDVPGEPVEAEEKEDEEPVERVRKT 135

Query: 61  SKFMTKYERARILGTRALQISMNAPVMVELEGETDPLEIAMKELRERKIPFTIRRYLPDG 120
           SKFMTKYERARILGTRALQISMNAPVMVELEGETDPLEIAMKELRERKIPFTIRRYLPDG
Sbjct: 136 SKFMTKYERARILGTRALQISMNAPVMVELEGETDPLEIAMKELRERKIPFTIRRYLPDG 195

Query: 121 SYEDWGVDELIVEDSWKRQVGGA 144
           SYEDWGVDELIVEDSWKRQVGGA
Sbjct: 196 SYEDWGVDELIVEDSWKRQVGGA 217

[Close]
BLAST of Cp4.1LG14g06060 vs. NCBI nr
Match: gi|449437154|ref|XP_004136357.1| (PREDICTED: DNA-directed RNA polymerases II, IV and V subunit 6A [Cucumis sativus])

HSP 1 Score: 264.6 bits (675), Expect = 9.9e-68
Identity = 137/143 (95.80%), Postives = 139/143 (97.20%), Query Frame = 1 

Query: 1   MADDDYNDLDMGYDDEPPEPELEEGAEEELDNNNNDDVPGEPVEAEEKEDEEPVERVRKT 60
           MADDDYNDLDMGY+DEPPEPE+EEGAEEELD N  DDVPGEPVEAE KEDEEPVERVRKT
Sbjct: 1   MADDDYNDLDMGYEDEPPEPEIEEGAEEELDTNT-DDVPGEPVEAEGKEDEEPVERVRKT 60

Query: 61  SKFMTKYERARILGTRALQISMNAPVMVELEGETDPLEIAMKELRERKIPFTIRRYLPDG 120
           SKFMTKYERARILGTRALQISMNAPVMVELEGETDPLEIAMKELRERKIPFTIRRYLPDG
Sbjct: 61  SKFMTKYERARILGTRALQISMNAPVMVELEGETDPLEIAMKELRERKIPFTIRRYLPDG 120

Query: 121 SYEDWGVDELIVEDSWKRQVGGA 144
           SYEDWGVDELIVEDSWKRQVGGA
Sbjct: 121 SYEDWGVDELIVEDSWKRQVGGA 142

[Close]
BLAST of Cp4.1LG14g06060 vs. NCBI nr
Match: gi|703122055|ref|XP_010102486.1| (DNA-directed RNA polymerases I, II, and III subunit RPABC2 [Morus notabilis])

HSP 1 Score: 255.8 bits (652), Expect = 4.6e-65
Identity = 127/142 (89.44%), Postives = 136/142 (95.77%), Query Frame = 1 

Query: 1   MADDDYNDLDMGYDDEPPEPELEEGAEEELDNNNNDDVPGEPVEAEEKEDEEPVERVRKT 60
           MADDDY ++DMGY+DEPPEPE+EEGAEE++DNNNNDD  GEP+EAE+K DEEPVE  RKT
Sbjct: 1   MADDDYTEMDMGYEDEPPEPEIEEGAEEDVDNNNNDDTGGEPIEAEDKADEEPVEHPRKT 60

Query: 61  SKFMTKYERARILGTRALQISMNAPVMVELEGETDPLEIAMKELRERKIPFTIRRYLPDG 120
           SK+MTKYERARILGTRALQISMNAPVMVELEGETDPLEIAMKELRERKIPFTIRRYLPDG
Sbjct: 61  SKYMTKYERARILGTRALQISMNAPVMVELEGETDPLEIAMKELRERKIPFTIRRYLPDG 120

Query: 121 SYEDWGVDELIVEDSWKRQVGG 143
           SYEDWGVDELIVEDSWKRQVGG
Sbjct: 121 SYEDWGVDELIVEDSWKRQVGG 142

The following BLAST results are available for this feature:
BLAST of Cp4.1LG14g06060 vs. Swiss-Prot
Match NameE-valueIdentityDescription
RPD6A_ARATH2.0e-6082.52DNA-directed RNA polymerases II, IV and V subunit 6A OS=Arabidopsis thaliana GN=... [more]
RPB6B_ARATH7.1e-5881.12DNA-directed RNA polymerases II and V subunit 6B OS=Arabidopsis thaliana GN=NRPB... [more]
RPAB2_MOUSE6.9e-2960.15DNA-directed RNA polymerases I, II, and III subunit RPABC2 OS=Mus musculus GN=Po... [more]
RPAB2_RAT6.9e-2960.15DNA-directed RNA polymerases I, II, and III subunit RPABC2 OS=Rattus norvegicus ... [more]
RPAB2_CRIGR9.1e-2960.15DNA-directed RNA polymerases I, II, and III subunit RPABC2 OS=Cricetulus griseus... [more]
BLAST of Cp4.1LG14g06060 vs. TrEMBL
Match NameE-valueIdentityDescription
A0A0A0L8L8_CUCSA4.3e-7095.10Uncharacterized protein OS=Cucumis sativus GN=Csa_3G180370 PE=3 SV=1[more]
A0A0A0LGM1_CUCSA6.9e-6895.80Uncharacterized protein OS=Cucumis sativus GN=Csa_3G877600 PE=3 SV=1[more]
W9S7H0_9ROSA3.2e-6589.44DNA-directed RNA polymerases I, II, and III subunit RPABC2 OS=Morus notabilis GN... [more]
A0A061G0M3_THECC2.7e-6487.32DNA-directed RNA polymerase II subunit protein isoform 1 OS=Theobroma cacao GN=T... [more]
B9I4C9_POPTR3.5e-6488.03Uncharacterized protein OS=Populus trichocarpa GN=POPTR_0012s13610g PE=3 SV=2[more]
BLAST of Cp4.1LG14g06060 vs. TAIR10
Match NameE-valueIdentityDescription
AT5G51940.11.1e-6182.52 RNA polymerase Rpb6[more]
AT2G04630.14.0e-5981.12 RNA polymerase Rpb6[more]
BLAST of Cp4.1LG14g06060 vs. NCBI nr
Match NameE-valueIdentityDescription
gi|449446057|ref|XP_004140788.1|6.2e-7095.10PREDICTED: DNA-directed RNA polymerases II, IV and V subunit 6A [Cucumis sativus... [more]
gi|659077388|ref|XP_008439178.1|1.1e-6995.80PREDICTED: DNA-directed RNA polymerases II, IV and V subunit 6A [Cucumis melo][more]
gi|659132857|ref|XP_008466421.1|3.1e-6997.20PREDICTED: DNA-directed RNA polymerases II, IV and V subunit 6A-like [Cucumis me... [more]
gi|449437154|ref|XP_004136357.1|9.9e-6895.80PREDICTED: DNA-directed RNA polymerases II, IV and V subunit 6A [Cucumis sativus... [more]
gi|703122055|ref|XP_010102486.1|4.6e-6589.44DNA-directed RNA polymerases I, II, and III subunit RPABC2 [Morus notabilis][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
Vocabulary: Biological Process
TermDefinition
GO:0006351transcription, DNA-templated
Vocabulary: Cellular Component
TermDefinition
GO:0005665DNA-directed RNA polymerase II, core complex
GO:0005634nucleus
Vocabulary: INTERPRO
TermDefinition
IPR020708DNA-dir_RNA_polK_14-18kDa_CS
IPR012293RNAP_RPB6_omega
IPR006111RpoK/Rpb6
IPR006110Pol_omega/K/RPB6
GO Annotation
GO Assignments
This gene is annotated with the following GO terms.
Category Term Accession Term Name
biological_process GO:0006144 purine nucleobase metabolic process
biological_process GO:0006206 pyrimidine nucleobase metabolic process
biological_process GO:0006351 transcription, DNA-templated
biological_process GO:0006383 transcription from RNA polymerase III promoter
biological_process GO:0006366 transcription from RNA polymerase II promoter
biological_process GO:0006360 transcription from RNA polymerase I promoter
cellular_component GO:0005665 DNA-directed RNA polymerase II, core complex
cellular_component GO:0005730 nucleolus
cellular_component GO:0005634 nucleus
cellular_component GO:0005736 DNA-directed RNA polymerase I complex
cellular_component GO:0005666 DNA-directed RNA polymerase III complex
molecular_function GO:0003677 DNA binding
molecular_function GO:0003899 DNA-directed RNA polymerase activity
molecular_function GO:0001054 RNA polymerase I activity
molecular_function GO:0001055 RNA polymerase II activity
molecular_function GO:0001056 RNA polymerase III activity
Relationships

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

Feature NameUnique NameType
Cp4.1LG14g06060.1Cp4.1LG14g06060.1mRNA


InterPro
Analysis Name: InterPro Annotations of Cucurbita pepo
Date Performed: 2017-12-02
IPR TermIPR DescriptionSourceSource TermSource DescriptionAlignment
IPR006110RNA polymerase, subunit omega/K/RPB6PFAMPF01192RNA_pol_Rpb6coord: 60..111
score: 6.9
IPR006110RNA polymerase, subunit omega/K/RPB6SMARTSM01409RNA_pol_Rpb6_2coord: 58..111
score: 4.
IPR006110RNA polymerase, subunit omega/K/RPB6unknownSSF63562RPB6/omega subunit-likecoord: 1..133
score: 3.56
IPR006111Archaeal RpoK/eukaryotic RPB6 RNA polymerase subunitHAMAPMF_00192RNApol_arch_Kcoord: 62..117
score: 18
IPR006111Archaeal RpoK/eukaryotic RPB6 RNA polymerase subunitPIRPIRSF000778RpoK/RPB6coord: 1..134
score: 8.1
IPR006111Archaeal RpoK/eukaryotic RPB6 RNA polymerase subunitPANTHERPTHR10773DNA-DIRECTED RNA POLYMERASES I, II, AND III SUBUNIT RPABC2coord: 1..142
score: 6.6
IPR012293RNA polymerase subunit, RPB6/omegaGENE3DG3DSA:3.90.940.10coord: 14..133
score: 1.5
IPR020708DNA-directed RNA polymerase, 14-18kDa subunit, conserved sitePROSITEPS01111RNA_POL_K_14KDcoord: 65..79
scor

Synteny
The following gene(s) are orthologous to this gene:
GeneOrthologueOrganismBlock
Cp4.1LG14g06060Cucsa.250930Cucumber (Gy14) v1cgycpeB0673
Cp4.1LG14g06060CmaCh16G001440Cucurbita maxima (Rimu)cmacpeB344
Cp4.1LG14g06060CmaCh18G012280Cucurbita maxima (Rimu)cmacpeB425
Cp4.1LG14g06060CmoCh18G012510Cucurbita moschata (Rifu)cmocpeB386
Cp4.1LG14g06060CmoCh16G001510Cucurbita moschata (Rifu)cmocpeB307
Cp4.1LG14g06060Cla006203Watermelon (97103) v1cpewmB227
Cp4.1LG14g06060Csa3G180370Cucumber (Chinese Long) v2cpecuB214
Cp4.1LG14g06060MELO3C006881Melon (DHL92) v3.5.1cpemeB190
Cp4.1LG14g06060ClCG05G007860Watermelon (Charleston Gray)cpewcgB207
Cp4.1LG14g06060CSPI03G16680Wild cucumber (PI 183967)cpecpiB217
Cp4.1LG14g06060Lsi05G012560Bottle gourd (USVL1VR-Ls)cpelsiB172
Cp4.1LG14g06060MELO3C006881.2Melon (DHL92) v3.6.1cpemedB233
Cp4.1LG14g06060CsaV3_3G016860Cucumber (Chinese Long) v3cpecucB0257
Cp4.1LG14g06060Bhi01G000989Wax gourdcpewgoB0290
Cp4.1LG14g06060CsGy3G016780Cucumber (Gy14) v2cgybcpeB327
Cp4.1LG14g06060Carg16696Silver-seed gourdcarcpeB1215
Cp4.1LG14g06060Carg22080Silver-seed gourdcarcpeB1039
The following gene(s) are paralogous to this gene:
GeneParalogueOrganismBlock
Cp4.1LG14g06060Cp4.1LG09g01070Cucurbita pepo (Zucchini)cpecpeB023
The following block(s) are covering this gene:
GeneOrganismBlock
Cp4.1LG14g06060Cucurbita pepo (Zucchini)cpecpeB232
Cp4.1LG14g06060Cucurbita pepo (Zucchini)cpecpeB245
Cp4.1LG14g06060Cucurbita maxima (Rimu)cmacpeB608
Cp4.1LG14g06060Cucurbita moschata (Rifu)cmocpeB557
Cp4.1LG14g06060Wild cucumber (PI 183967)cpecpiB229
Cp4.1LG14g06060Cucumber (Chinese Long) v2cpecuB226
Cp4.1LG14g06060Watermelon (Charleston Gray)cpewcgB202
Cp4.1LG14g06060Melon (DHL92) v3.5.1cpemeB181
Cp4.1LG14g06060Cucumber (Gy14) v2cgybcpeB746
Cp4.1LG14g06060Melon (DHL92) v3.6.1cpemedB219
Cp4.1LG14g06060Silver-seed gourdcarcpeB0998
Cp4.1LG14g06060Silver-seed gourdcarcpeB1272
Cp4.1LG14g06060Cucumber (Chinese Long) v3cpecucB0281