Carg16696 (gene) Silver-seed gourd | Cucurbit Genomics Database (CuGenDB)

Overview


Name	Carg16696
Type	gene
Organism	Cucurbita argyrosperma (Silver-seed gourd)
Description	DNA-directed RNA polymerases I, II, and III subunit RPABC2
Location	Cucurbita_argyrosperma_scaffold_087 : 5157 .. 7855 (+)

Genome Viewer

Gene Expression

Sequences

The following sequences are available for this feature:

Gene sequence (with intron)

Legend: exonfive_prime_UTRpolypeptideCDS

Hold the cursor over a type above to highlight its positions in the sequence below.

CGTGGTCGTTTACTTCTGAAGTTTTGCAACTGAGGGTTTTAGTGAGTAACCAGAGAGCGCGGCAACAGTTTCTCCATCGAACATCAATGGCGGACGATGATTACAATGACCTCGACATGGGGTTCGATCTCTTTCCATATGCTTTTATTTATTCAATATGTTCTTCTCGAATCTTTTAATGTTCCTTTGGTCAATTGTTCTCTTTGAAAATCCGTCGAATGAAAAAGCCTTTCGAAACTAAGTTCGTTCCTTCAAGTTCAACTCGGTTAGTACGGATTTGGAACTGAATTTGTGAAGGAAAATAGTTCGGTTATGATGAAGATTATTTAGCTGTTTAGAAGGAGATGCTATCACGTACTGGAACCAGACTCGGTTGTGCGAGAGATTCTGCACAGTCTGCTTTTATGTAGTTATAAGCGTGTGAGGAGTTTAAAAGAGTTACTTCGGCAAATGTTTGATTTCTCTGGCTGCCTTACAGCTCACAATACCAATGTTTAAAGGTTTAAGCGTGTGCAATGATCTTAGATAGCTGCTTGTGACATATTCAATTAGGGTTTTTCTTTAGGTATAAATTATGGACTTCTTCTGCCTTGAAAGCATGGCTGCTGGACAAACGTTACTCAAAATTTCTACTTCTTTTTCCTTCATAATCAGATACCAAATTAAGTTTGTAACTGCCACTCGTCATTGTAATATTCCGGAAACTACAGTCTAAGCCCTGAGATGTGAAAAGATGTTTACGACCTTATGCTCCTTATTGGATACTTATGTTCATAAGCATCATGCTTTAGTGAACTACGTTATTTTAGGTCAGTTTTGCTAATTGTTGGGCAATACACGTTTTATTCATTAGTGAAAAGGAACTTTGATAACCTTCATTTTTATAATGGATTACTATGTCTAAGATTTAAACATTGTATGTTGAAGAATTGTTTTTAAAGCTTTCCTGTTAGTAGTTTATTTAATTGGATAGGCCTCTTGCTGCATATATACATTAAATCTTGTATTATCAGTTCTTCAAAGTAGGCTTTTATTCACTTTATTCCCTGTTTCTGATGTCCCTTTTTATTTGCTTGAAGAACCGGCCCTGCTTCTAGAATACAGTTAGCTCATCAGATTGCTGTACCAGCTGCATTTTTTTAAAAAAAATATCTGTTAACTTAGACTGATAGACCGTGTTTAGTGTTTTATGTCACATTTTACGTCACATTTTTTGGATTTTATATCTGTGGTTGAGGACTGGAGATCTGAATTTTGGGGCTACACAAATGGTTTGCTATTAGAAGTTAATATAATAAGATCCCATTCTTAGCTTTAGTTTGACCACACTGGTATAGTCTTGTTTTGTGAAAGTCCTTTAGATTTTCATCTAGGCTGATTGGGAGGTTCAAATATCTTTCAGCTTTTCTATTAATTTAGTGGTTTTTGTTGCAGATATGACGATGAGCCACCAGAACCAGAATTGGAGGTATGAAATAATTAATTCAACTTTATTTAAAAGAAAGTAGATAACTGTTCTTTTTGAAGTTGATTAATTATAGTGGAACTGAAAATGATGTACAGGAAGGTGCTGAAGAAGAATTGGATAATAATAACAATGATGATGTTCCTGGTGAACCTGTTGAAGCAGAGGAAAAGGAAGATGAAGAACCTGTTGAACGTGTGCGTAAAACCTCAAAATTTATGACAAAGTATGAACGTGCTAGAATTTTGGGTACACGTGCCCTCCAAATCAGGTTCTCTTTTTAACATTTGCTACATCCAAATTTTTTACGGGCATCAAGTTGATAATTGGTATGATGGTTCTTTTTCCTATTGGGCAGCATGAATGCTCCTGTGATGGTCGAATTGGAGGGCGAGACTGATCCACTTGAGGTTAGATTTTTTAAAATGTTAAGCTAAGATCTTTGGAAAGCTCTCTTTTGGTTTGTGCATCCAGCTAGATGTATTTTTGTTGCCTCATATGTGCATGCCATGGTTAGTATGCCTACTCAAAAGAAAAGGGTTAAATTTAAATCATACAAAAATGCCCTCAAACTTTGAGGTTGGGGGTTAAATTTGAACTATTTCAAACAATAGAGTATAATTGAAACTAGCATCAAAGCTTCAGTAAGTTAGTCAAACTGATTTGACCGCTTACAGTTTGTAATTGTAATAGCTCTGCTGGTATAGTGAATGTGGATTTATATGCTTATCCATTTGAGTGATTCGCATGTTCTTGGTTGTTTGTGGCGTTGGTCTTTCATATCTCATCTAATCCTGTGCTTTTTAGATTGCAATGAAGGAGCTTCGTGAGCGGAAGATACCCTTCACCATCCGTCGCTACCTGCCAGATGGAAGGTTAGAGCTTTTAGATCTTATTCTTTTATCTTTTAACATTTTATTGCCTGAAGGGGGGTGGGGGGTGCAGAAAATTGAAAACAAGTGTAACCAACTGATTTGGTTTCTTATGTGTTCATGTATGTATAAGTTTAAAGAGACCGGGTTTTGGACTAGTTTTAGCGAAAAAGAAATTTTCCTAAGGTTTTGGTTCTCGCAATTTTCCAATACCAAAATCATTCTAGTTTTCTGTAGGATAAGATAAAGAATGGTACTTGAGTGAAACTTTCTGTCTGTTAATTCTGCGCAGTTATGAAGACTGGGGCGTTGATGAACTGATTGTGGAGGACTCCTGGAAGAGGCAAGTTGGTGGCGCTTGA

mRNA sequence

CGTGGTCGTTTACTTCTGAAGTTTTGCAACTGAGGGTTTTAGTGAGTAACCAGAGAGCGCGGCAACAGTTTCTCCATCGAACATCAATGGCGGACGATGATTACAATGACCTCGACATGGGATATGACGATGAGCCACCAGAACCAGAATTGGAGGAAGGTGCTGAAGAAGAATTGGATAATAATAACAATGATGATGTTCCTGGTGAACCTGTTGAAGCAGAGGAAAAGGAAGATGAAGAACCTGTTGAACGTGTGCGTAAAACCTCAAAATTTATGACAAAGTATGAACGTGCTAGAATTTTGGGTACACGTGCCCTCCAAATCAGCATGAATGCTCCTGTGATGGTCGAATTGGAGGGCGAGACTGATCCACTTGAGATTGCAATGAAGGAGCTTCGTGAGCGGAAGATACCCTTCACCATCCGTCGCTACCTGCCAGATGGAAGTTATGAAGACTGGGGCGTTGATGAACTGATTGTGGAGGACTCCTGGAAGAGGCAAGTTGGTGGCGCTTGA

Coding sequence (CDS)

ATGGCGGACGATGATTACAATGACCTCGACATGGGATATGACGATGAGCCACCAGAACCAGAATTGGAGGAAGGTGCTGAAGAAGAATTGGATAATAATAACAATGATGATGTTCCTGGTGAACCTGTTGAAGCAGAGGAAAAGGAAGATGAAGAACCTGTTGAACGTGTGCGTAAAACCTCAAAATTTATGACAAAGTATGAACGTGCTAGAATTTTGGGTACACGTGCCCTCCAAATCAGCATGAATGCTCCTGTGATGGTCGAATTGGAGGGCGAGACTGATCCACTTGAGATTGCAATGAAGGAGCTTCGTGAGCGGAAGATACCCTTCACCATCCGTCGCTACCTGCCAGATGGAAGTTATGAAGACTGGGGCGTTGATGAACTGATTGTGGAGGACTCCTGGAAGAGGCAAGTTGGTGGCGCTTGA

Protein sequence

MADDDYNDLDMGYDDEPPEPELEEGAEEELDNNNNDDVPGEPVEAEEKEDEEPVERVRKTSKFMTKYERARILGTRALQISMNAPVMVELEGETDPLEIAMKELRERKIPFTIRRYLPDGSYEDWGVDELIVEDSWKRQVGGA

Homology

[Close]

BLAST of Carg16696 vs. NCBI nr
Match: XP_022923151.1 (DNA-directed RNA polymerases II, IV and V subunit 6A-like [Cucurbita moschata] >XP_022984652.1 DNA-directed RNA polymerases II, IV and V subunit 6A-like [Cucurbita maxima] >XP_022984654.1 DNA-directed RNA polymerases II, IV and V subunit 6A-like [Cucurbita maxima] >XP_023551729.1 DNA-directed RNA polymerases II, IV and V subunit 6A-like [Cucurbita pepo subsp. pepo])

HSP 1 Score: 208.8 bits (530), Expect = 1.3e-50
Identity = 143/143 (100.00%), Postives = 143/143 (100.00%), Query Frame = 0


Query: 1   MADDDYNDLDMGYDDEPPEPELEXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXKT 60
           MADDDYNDLDMGYDDEPPEPELEXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXKT
Sbjct: 1   MADDDYNDLDMGYDDEPPEPELEXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXKT 60

Query: 61  SKFMTKYERARILGTRALQISMNAPVMVELEGETDPLEIAMKELRERKIPFTIRRYLPDG 120
           SKFMTKYERARILGTRALQISMNAPVMVELEGETDPLEIAMKELRERKIPFTIRRYLPDG
Sbjct: 61  SKFMTKYERARILGTRALQISMNAPVMVELEGETDPLEIAMKELRERKIPFTIRRYLPDG 120

Query: 121 SYEDWGVDELIVEDSWKRQVGGA 144
           SYEDWGVDELIVEDSWKRQVGGA
Sbjct: 121 SYEDWGVDELIVEDSWKRQVGGA 143

[Close]

BLAST of Carg16696 vs. NCBI nr
Match: XP_004140788.1 (PREDICTED: DNA-directed RNA polymerases II, IV and V subunit 6A [Cucumis sativus] >KGN57349.1 hypothetical protein Csa_3G180370 [Cucumis sativus])

HSP 1 Score: 206.5 bits (524), Expect = 6.2e-50
Identity = 118/143 (82.52%), Postives = 120/143 (83.92%), Query Frame = 0


Query: 1   MADDDYNDLDMGYDDEPPEPELEXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXKT 60
           MADDDYNDLDMGY+DEPPEPE+E  XXXXXXXXXXXX                     KT
Sbjct: 1   MADDDYNDLDMGYEDEPPEPEIEEGXXXXXXXXXXXXIPGEPVEAEEKEDEEPIVRARKT 60

Query: 61  SKFMTKYERARILGTRALQISMNAPVMVELEGETDPLEIAMKELRERKIPFTIRRYLPDG 120
           SKFMTKYERARILGTRALQISMNAPVMVELEGETDPLEIAMKELRERKIPFTIRRYLPDG
Sbjct: 61  SKFMTKYERARILGTRALQISMNAPVMVELEGETDPLEIAMKELRERKIPFTIRRYLPDG 120

Query: 121 SYEDWGVDELIVEDSWKRQVGGA 144
           SYEDWGVDELIVEDSWKRQVGGA
Sbjct: 121 SYEDWGVDELIVEDSWKRQVGGA 143

[Close]

BLAST of Carg16696 vs. NCBI nr
Match: XP_008439178.1 (PREDICTED: DNA-directed RNA polymerases II, IV and V subunit 6A [Cucumis melo])

HSP 1 Score: 206.5 bits (524), Expect = 6.2e-50
Identity = 106/143 (74.13%), Postives = 108/143 (75.52%), Query Frame = 0


Query: 1   MADDDYNDLDMGYDDEPPEPELEXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXKT 60
           MADDDYNDLDMGY+DEPPEPE+E                                   KT
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 Carg16696 vs. NCBI nr
Match: XP_022141284.1 (DNA-directed RNA polymerases II, IV and V subunit 6A [Momordica charantia])

HSP 1 Score: 206.5 bits (524), Expect = 6.2e-50
Identity = 121/143 (84.62%), Postives = 123/143 (86.01%), Query Frame = 0


Query: 1   MADDDYNDLDMGYDDEPPEPELEXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXKT 60
           MADDDYNDLDMGY+DEPPEPE+EXXXXXXXXXXXXXX           X         KT
Sbjct: 1   MADDDYNDLDMGYEDEPPEPEMEXXXXXXXXXXXXXXVLGEPVEAEEKXDEEPVERVRKT 60

Query: 61  SKFMTKYERARILGTRALQISMNAPVMVELEGETDPLEIAMKELRERKIPFTIRRYLPDG 120
           SKFMTKYERARILGTRALQISMNAPVMVELEGETDPLEIAMKELRERKIPFTIRRYLPDG
Sbjct: 61  SKFMTKYERARILGTRALQISMNAPVMVELEGETDPLEIAMKELRERKIPFTIRRYLPDG 120

Query: 121 SYEDWGVDELIVEDSWKRQVGGA 144
           SYEDWGVDELIVEDSWKRQVGGA
Sbjct: 121 SYEDWGVDELIVEDSWKRQVGGA 143

[Close]

BLAST of Carg16696 vs. NCBI nr
Match: XP_022944842.1 (DNA-directed RNA polymerases II, IV and V subunit 6A-like [Cucurbita moschata] >XP_022968530.1 DNA-directed RNA polymerases II, IV and V subunit 6A-like [Cucurbita maxima] >XP_023541080.1 DNA-directed RNA polymerases II, IV and V subunit 6A-like [Cucurbita pepo subsp. pepo])

HSP 1 Score: 205.3 bits (521), Expect = 1.4e-49
Identity = 121/143 (84.62%), Postives = 124/143 (86.71%), Query Frame = 0


Query: 1   MADDDYNDLDMGYDDEPPEPELEXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXKT 60
           MADDDYND+DMGY+DEPPEPE+E                 XXXXXXXXXXXXXXXX  KT
Sbjct: 1   MADDDYNDVDMGYEDEPPEPEMEEGAEEELDNNNADDVPGXXXXXXXXXXXXXXXXVRKT 60

Query: 61  SKFMTKYERARILGTRALQISMNAPVMVELEGETDPLEIAMKELRERKIPFTIRRYLPDG 120
           SKFMTKYERARILGTRALQISMNAPVMVELEGETDPLEIAMKELRERKIPFTIRRYLPDG
Sbjct: 61  SKFMTKYERARILGTRALQISMNAPVMVELEGETDPLEIAMKELRERKIPFTIRRYLPDG 120

Query: 121 SYEDWGVDELIVEDSWKRQVGGA 144
           SYEDWGVDELIVEDSWKRQVGGA
Sbjct: 121 SYEDWGVDELIVEDSWKRQVGGA 143

[Close]

BLAST of Carg16696 vs. TAIR10
Match: AT5G51940.1 (RNA polymerase Rpb6)

HSP 1 Score: 189.1 bits (479), Expect = 1.9e-48
Identity = 98/143 (68.53%), Postives = 106/143 (74.13%), Query Frame = 0


Query: 1   MADDDYNDL-DMGYDDEPPEPELEXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXK 60
           MAD+DYND+ D+GY+DEP EPE+E                                   K
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 Carg16696 vs. TAIR10
Match: AT2G04630.1 (RNA polymerase Rpb6)

HSP 1 Score: 187.2 bits (474), Expect = 7.1e-48
Identity = 98/143 (68.53%), Postives = 105/143 (73.43%), Query Frame = 0


Query: 1   MADDDYNDL-DMGYDDEPPEPELEXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXK 60
           MADDDYN++ D+GY+DEP EPE+E                                   K
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 Carg16696 vs. Swiss-Prot
Match: sp|Q9FJ98|RPD6A_ARATH (DNA-directed RNA polymerases II, IV and V subunit 6A OS=Arabidopsis thaliana OX=3702 GN=NRPB6A PE=1 SV=1)

HSP 1 Score: 189.1 bits (479), Expect = 3.4e-47
Identity = 98/143 (68.53%), Postives = 106/143 (74.13%), Query Frame = 0


Query: 1   MADDDYNDL-DMGYDDEPPEPELEXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXK 60
           MAD+DYND+ D+GY+DEP EPE+E                                   K
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 Carg16696 vs. Swiss-Prot
Match: sp|Q9SJ96|RPB6B_ARATH (DNA-directed RNA polymerases II and V subunit 6B OS=Arabidopsis thaliana OX=3702 GN=NRPB6B PE=1 SV=1)

HSP 1 Score: 187.2 bits (474), Expect = 1.3e-46
Identity = 98/143 (68.53%), Postives = 105/143 (73.43%), Query Frame = 0


Query: 1   MADDDYNDL-DMGYDDEPPEPELEXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXK 60
           MADDDYN++ D+GY+DEP EPE+E                                   K
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 Carg16696 vs. Swiss-Prot
Match: sp|P61219|RPAB2_MOUSE (DNA-directed RNA polymerases I, II, and III subunit RPABC2 OS=Mus musculus OX=10090 GN=Polr2f PE=2 SV=1)

HSP 1 Score: 130.2 bits (326), Expect = 1.9e-29
Identity = 62/75 (82.67%), Postives = 68/75 (90.67%), Query Frame = 0


Query: 60  TSKFMTKYERARILGTRALQISMNAPVMVELEGETDPLEIAMKELRERKIPFTIRRYLPD 119
           T+ +MTKYERAR+LGTRALQI+M APVMVELEGETDPL IAMKEL+ RKIP  IRRYLPD
Sbjct: 53  TTPYMTKYERARVLGTRALQIAMCAPVMVELEGETDPLLIAMKELKARKIPIIIRRYLPD 112

Query: 120 GSYEDWGVDELIVED 135
           GSYEDWGVDELI+ D
Sbjct: 113 GSYEDWGVDELIISD 127

[Close]

BLAST of Carg16696 vs. Swiss-Prot
Match: sp|O88828|RPAB2_RAT (DNA-directed RNA polymerases I, II, and III subunit RPABC2 OS=Rattus norvegicus OX=10116 GN=Polr2f PE=1 SV=1)

HSP 1 Score: 130.2 bits (326), Expect = 1.9e-29
Identity = 62/75 (82.67%), Postives = 68/75 (90.67%), Query Frame = 0


Query: 60  TSKFMTKYERARILGTRALQISMNAPVMVELEGETDPLEIAMKELRERKIPFTIRRYLPD 119
           T+ +MTKYERAR+LGTRALQI+M APVMVELEGETDPL IAMKEL+ RKIP  IRRYLPD
Sbjct: 53  TTPYMTKYERARVLGTRALQIAMCAPVMVELEGETDPLLIAMKELKARKIPIIIRRYLPD 112

Query: 120 GSYEDWGVDELIVED 135
           GSYEDWGVDELI+ D
Sbjct: 113 GSYEDWGVDELIISD 127

[Close]

BLAST of Carg16696 vs. Swiss-Prot
Match: sp|Q32PE0|RPAB2_BOVIN (DNA-directed RNA polymerases I, II, and III subunit RPABC2 OS=Bos taurus OX=9913 GN=POLR2F PE=1 SV=1)

HSP 1 Score: 129.8 bits (325), Expect = 2.4e-29
Identity = 62/75 (82.67%), Postives = 68/75 (90.67%), Query Frame = 0


Query: 60  TSKFMTKYERARILGTRALQISMNAPVMVELEGETDPLEIAMKELRERKIPFTIRRYLPD 119
           T+ +MTKYERAR+LGTRALQI+M APVMVELEGETDPL IAMKEL+ RKIP  IRRYLPD
Sbjct: 53  TTPYMTKYERARVLGTRALQIAMCAPVMVELEGETDPLLIAMKELKARKIPIIIRRYLPD 112

Query: 120 GSYEDWGVDELIVED 135
           GSYEDWGVDELI+ D
Sbjct: 113 GSYEDWGVDELIITD 127

[Close]

BLAST of Carg16696 vs. TrEMBL
Match: tr|A0A1S3AXR1|A0A1S3AXR1_CUCME (DNA-directed RNA polymerases II, IV and V subunit 6A OS=Cucumis melo OX=3656 GN=LOC103484050 PE=3 SV=1)

HSP 1 Score: 206.5 bits (524), Expect = 4.1e-50
Identity = 106/143 (74.13%), Postives = 108/143 (75.52%), Query Frame = 0


Query: 1   MADDDYNDLDMGYDDEPPEPELEXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXKT 60
           MADDDYNDLDMGY+DEPPEPE+E                                   KT
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 Carg16696 vs. TrEMBL
Match: tr|A0A0A0L8L8|A0A0A0L8L8_CUCSA (Uncharacterized protein OS=Cucumis sativus OX=3659 GN=Csa_3G180370 PE=3 SV=1)

HSP 1 Score: 206.5 bits (524), Expect = 4.1e-50
Identity = 118/143 (82.52%), Postives = 120/143 (83.92%), Query Frame = 0


Query: 1   MADDDYNDLDMGYDDEPPEPELEXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXKT 60
           MADDDYNDLDMGY+DEPPEPE+E  XXXXXXXXXXXX                     KT
Sbjct: 1   MADDDYNDLDMGYEDEPPEPEIEEGXXXXXXXXXXXXIPGEPVEAEEKEDEEPIVRARKT 60

Query: 61  SKFMTKYERARILGTRALQISMNAPVMVELEGETDPLEIAMKELRERKIPFTIRRYLPDG 120
           SKFMTKYERARILGTRALQISMNAPVMVELEGETDPLEIAMKELRERKIPFTIRRYLPDG
Sbjct: 61  SKFMTKYERARILGTRALQISMNAPVMVELEGETDPLEIAMKELRERKIPFTIRRYLPDG 120

Query: 121 SYEDWGVDELIVEDSWKRQVGGA 144
           SYEDWGVDELIVEDSWKRQVGGA
Sbjct: 121 SYEDWGVDELIVEDSWKRQVGGA 143

[Close]

BLAST of Carg16696 vs. TrEMBL
Match: tr|M5VXX5|M5VXX5_PRUPE (Uncharacterized protein OS=Prunus persica OX=3760 GN=PRUPE_7G013200 PE=3 SV=1)

HSP 1 Score: 202.6 bits (514), Expect = 5.9e-49
Identity = 103/142 (72.54%), Postives = 107/142 (75.35%), Query Frame = 0


Query: 1   MADDDYNDLDMGYDDEPPEPELEXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXKT 60
           MAD+DYND+DMGY+DEPPEPE+E                                   KT
Sbjct: 1   MADEDYNDMDMGYEDEPPEPEIEEGAEEDVDNINNDDLPGDAIEAEDKEEQAQVEGPRKT 60

Query: 61  SKFMTKYERARILGTRALQISMNAPVMVELEGETDPLEIAMKELRERKIPFTIRRYLPDG 120
           SKFMTKYERARILGTRALQISMNAPVMVELEGETDPLEIAMKELRERKIPFTIRRYLPDG
Sbjct: 61  SKFMTKYERARILGTRALQISMNAPVMVELEGETDPLEIAMKELRERKIPFTIRRYLPDG 120

Query: 121 SYEDWGVDELIVEDSWKRQVGG 143
           SYEDWGVDELIVEDSWKRQVGG
Sbjct: 121 SYEDWGVDELIVEDSWKRQVGG 142

[Close]

BLAST of Carg16696 vs. TrEMBL
Match: tr|A0A1S3CRD6|A0A1S3CRD6_CUCME (DNA-directed RNA polymerases II, IV and V subunit 6A-like OS=Cucumis melo OX=3656 GN=LOC103503834 PE=3 SV=1)

HSP 1 Score: 202.2 bits (513), Expect = 7.8e-49
Identity = 121/143 (84.62%), Postives = 123/143 (86.01%), Query Frame = 0


Query: 1   MADDDYNDLDMGYDDEPPEPELEXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXKT 60
           MADDDYNDLDMGY+DEPPEPE+E                XXXXXXXXXXXXXXX    KT
Sbjct: 76  MADDDYNDLDMGYEDEPPEPEIE-EGAEEELDTNNDDVPXXXXXXXXXXXXXXXERVRKT 135

Query: 61  SKFMTKYERARILGTRALQISMNAPVMVELEGETDPLEIAMKELRERKIPFTIRRYLPDG 120
           SKFMTKYERARILGTRALQISMNAPVMVELEGETDPLEIAMKELRERKIPFTIRRYLPDG
Sbjct: 136 SKFMTKYERARILGTRALQISMNAPVMVELEGETDPLEIAMKELRERKIPFTIRRYLPDG 195

Query: 121 SYEDWGVDELIVEDSWKRQVGGA 144
           SYEDWGVDELIVEDSWKRQVGGA
Sbjct: 196 SYEDWGVDELIVEDSWKRQVGGA 217

[Close]

BLAST of Carg16696 vs. TrEMBL
Match: tr|A0A0A0LGM1|A0A0A0LGM1_CUCSA (Uncharacterized protein OS=Cucumis sativus OX=3659 GN=Csa_3G877600 PE=3 SV=1)

HSP 1 Score: 202.2 bits (513), Expect = 7.8e-49
Identity = 128/143 (89.51%), Postives = 130/143 (90.91%), Query Frame = 0


Query: 1   MADDDYNDLDMGYDDEPPEPELEXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXKT 60
           MADDDYNDLDMGY+DEPPEPE+E      XXXXXXXXXXXXXXXXXXXXXX       KT
Sbjct: 1   MADDDYNDLDMGYEDEPPEPEIE-EGAEEXXXXXXXXXXXXXXXXXXXXXXEPVERVRKT 60

Query: 61  SKFMTKYERARILGTRALQISMNAPVMVELEGETDPLEIAMKELRERKIPFTIRRYLPDG 120
           SKFMTKYERARILGTRALQISMNAPVMVELEGETDPLEIAMKELRERKIPFTIRRYLPDG
Sbjct: 61  SKFMTKYERARILGTRALQISMNAPVMVELEGETDPLEIAMKELRERKIPFTIRRYLPDG 120

Query: 121 SYEDWGVDELIVEDSWKRQVGGA 144
           SYEDWGVDELIVEDSWKRQVGGA
Sbjct: 121 SYEDWGVDELIVEDSWKRQVGGA 142

The following BLAST results are available for this feature:

BLAST of Carg16696 vs. NCBI nr


Match Name	E-value	Identity	Description
XP_022923151.1	1.3e-50	100.00	DNA-directed RNA polymerases II, IV and V subunit 6A-like [Cucurbita moschata] >...	[more]
XP_004140788.1	6.2e-50	82.52	PREDICTED: DNA-directed RNA polymerases II, IV and V subunit 6A [Cucumis sativus...	[more]
XP_008439178.1	6.2e-50	74.13	PREDICTED: DNA-directed RNA polymerases II, IV and V subunit 6A [Cucumis melo]	[more]
XP_022141284.1	6.2e-50	84.62	DNA-directed RNA polymerases II, IV and V subunit 6A [Momordica charantia]	[more]
XP_022944842.1	1.4e-49	84.62	DNA-directed RNA polymerases II, IV and V subunit 6A-like [Cucurbita moschata] >...	[more]

BLAST of Carg16696 vs. TAIR10


Match Name	E-value	Identity	Description
AT5G51940.1	1.9e-48	68.53	RNA polymerase Rpb6	[more]
AT2G04630.1	7.1e-48	68.53	RNA polymerase Rpb6	[more]

BLAST of Carg16696 vs. Swiss-Prot


Match Name	E-value	Identity	Description
sp\|Q9FJ98\|RPD6A_ARATH	3.4e-47	68.53	DNA-directed RNA polymerases II, IV and V subunit 6A OS=Arabidopsis thaliana OX=...	[more]
sp\|Q9SJ96\|RPB6B_ARATH	1.3e-46	68.53	DNA-directed RNA polymerases II and V subunit 6B OS=Arabidopsis thaliana OX=3702...	[more]
sp\|P61219\|RPAB2_MOUSE	1.9e-29	82.67	DNA-directed RNA polymerases I, II, and III subunit RPABC2 OS=Mus musculus OX=10...	[more]
sp\|O88828\|RPAB2_RAT	1.9e-29	82.67	DNA-directed RNA polymerases I, II, and III subunit RPABC2 OS=Rattus norvegicus ...	[more]
sp\|Q32PE0\|RPAB2_BOVIN	2.4e-29	82.67	DNA-directed RNA polymerases I, II, and III subunit RPABC2 OS=Bos taurus OX=9913...	[more]

BLAST of Carg16696 vs. TrEMBL


Match Name	E-value	Identity	Description
tr\|A0A1S3AXR1\|A0A1S3AXR1_CUCME	4.1e-50	74.13	DNA-directed RNA polymerases II, IV and V subunit 6A OS=Cucumis melo OX=3656 GN=...	[more]
tr\|A0A0A0L8L8\|A0A0A0L8L8_CUCSA	4.1e-50	82.52	Uncharacterized protein OS=Cucumis sativus OX=3659 GN=Csa_3G180370 PE=3 SV=1	[more]
tr\|M5VXX5\|M5VXX5_PRUPE	5.9e-49	72.54	Uncharacterized protein OS=Prunus persica OX=3760 GN=PRUPE_7G013200 PE=3 SV=1	[more]
tr\|A0A1S3CRD6\|A0A1S3CRD6_CUCME	7.8e-49	84.62	DNA-directed RNA polymerases II, IV and V subunit 6A-like OS=Cucumis melo OX=365...	[more]
tr\|A0A0A0LGM1\|A0A0A0LGM1_CUCSA	7.8e-49	89.51	Uncharacterized protein OS=Cucumis sativus OX=3659 GN=Csa_3G877600 PE=3 SV=1	[more]

Annotated Terms

The following terms have been associated with this gene:

Vocabulary: **Cellular Component**
Term	Definition
GO:0005634	nucleus
GO:0005665	DNA-directed RNA polymerase II, core complex

Vocabulary: **Molecular Function**
Term	Definition
GO:0003899	DNA-directed RNA polymerase activity
GO:0003677	DNA binding

Vocabulary: **Biological Process**
Term	Definition
GO:0006351	transcription, DNA-templated

Vocabulary: **INTERPRO**
Term	Definition
IPR036161	RPB6/omega_like_sf
IPR020708	DNA-dir_RNA_polK_14-18kDa_CS
IPR012293	RNAP_RPB6_omega
IPR028363	RPB6
IPR006111	RpoK/Rpb6
IPR006110	Pol_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
cellular_component	GO:0005665	DNA-directed RNA polymerase II, core complex
cellular_component	GO:0005730	nucleolus
cellular_component	GO:0005634	nucleus
molecular_function	GO:0003677	DNA binding
molecular_function	GO:0003899	DNA-directed RNA polymerase activity

Relationships

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


Feature Name	Unique Name	Type
Carg16696-RA	Carg16696-RA	mRNA

InterPro

Analysis Name: InterPro Annotations of silver-seed gourd
Date Performed: 2019-03-07


IPR Term	IPR Description	Source	Source Term	Source Description	Alignment
IPR006110	RNA polymerase, subunit omega/K/RPB6	SMART	SM01409	RNA_pol_Rpb6_2	coord: 58..111 e-value: 4.7E-6 score: 36.1
IPR006110	RNA polymerase, subunit omega/K/RPB6	PFAM	PF01192	RNA_pol_Rpb6	coord: 60..111 e-value: 6.7E-16 score: 57.9
IPR006111	Archaeal RpoK/eukaryotic RPB6 RNA polymerase subunit	PIRSF	PIRSF000778	RpoK/RPB6	coord: 1..134 e-value: 9.8E-49 score: 162.9
IPR006111	Archaeal RpoK/eukaryotic RPB6 RNA polymerase subunit	HAMAP	MF_00192	RNApol_arch_K	coord: 62..117 score: 18.504
IPR028363	DNA-directed RNA polymerase, subunit RPB6	PIRSF	PIRSF500154	RPB6	coord: 1..134 e-value: 9.9E-56 score: 185.7
IPR012293	RNA polymerase subunit, RPB6/omega	GENE3D	G3DSA:3.90.940.10		coord: 2..134 e-value: 7.9E-51 score: 173.3
None	No IPR available	MOBIDB_LITE	mobidb-lite	disorder_prediction	coord: 1..50
None	No IPR available	MOBIDB_LITE	mobidb-lite	disorder_prediction	coord: 1..60
IPR020708	DNA-directed RNA polymerase, 14-18kDa subunit, conserved site	PROSITE	PS01111	RNA_POL_K_14KD	coord: 65..79
IPR036161	RPB6/omega subunit-like superfamily	SUPERFAMILY	SSF63562	RPB6/omega subunit-like	coord: 1..133

Synteny

The following gene(s) are orthologous to this gene:


Gene	Orthologue	Organism	Block
Carg16696	Cla006203	Watermelon (97103) v1	carwmB0874
Carg16696	Csa3G180370	Cucumber (Chinese Long) v2	carcuB0885
Carg16696	MELO3C006881	Melon (DHL92) v3.5.1	carmeB0859
Carg16696	ClCG05G007860	Watermelon (Charleston Gray)	carwcgB0847
Carg16696	CSPI03G16680	Wild cucumber (PI 183967)	carcpiB0905
Carg16696	Cucsa.250930	Cucumber (Gy14) v1	carcgyB0993
Carg16696	CmaCh18G012280	Cucurbita maxima (Rimu)	carcmaB1208
Carg16696	CmaCh16G001440	Cucurbita maxima (Rimu)	carcmaB1206
Carg16696	CmoCh18G012510	Cucurbita moschata (Rifu)	carcmoB1176
Carg16696	CmoCh16G001510	Cucurbita moschata (Rifu)	carcmoB1175
Carg16696	Lsi05G012560	Bottle gourd (USVL1VR-Ls)	carlsiB791
Carg16696	Cp4.1LG09g01070	Cucurbita pepo (Zucchini)	carcpeB1214
Carg16696	Cp4.1LG14g06060	Cucurbita pepo (Zucchini)	carcpeB1215
Carg16696	CsGy3G016780	Cucumber (Gy14) v2	carcgybB0859
Carg16696	MELO3C006881.2	Melon (DHL92) v3.6.1	carmedB0869
Carg16696	CsaV3_3G016860	Cucumber (Chinese Long) v3	carcucB0909
Carg16696	Cla97C05G089840	Watermelon (97103) v2	carwmbB0910
Carg16696	Bhi01G000989	Wax gourd	carwgoB1017

The following gene(s) are paralogous to this gene:

None

The following block(s) are covering this gene:

None