Clc05G09970 (gene) Watermelon (cordophanus) v2

Overview


Name	Clc05G09970
Type	gene
Organism	Citrullus lanatus subsp. cordophanus cv. cordophanus (Watermelon (cordophanus) v2)
Description	DNA-directed RNA polymerases II, IV and V subunit 6A-like
Location	ClcChr05: 8043587 .. 8046569 (-)
RNA-Seq Expression	Clc05G09970
Synteny	Clc05G09970

Sequences

The following sequences are available for this feature:

Gene sequence (with intron)

Legend: exonfive_prime_UTRpolypeptideCDSthree_prime_UTR

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

GAGTTGACGTCCGCCGTCGTCAGTTACATCGGCAATTGAGGGTTTTAGGGTGTAACCACTAACCAGAGAGGCGACACAGTTTCTGTCGATCATCAATGGCGGACGACGATTACAATGACCTCGACATGGGGTTCTCTCTCTCTCTCTCTCCACACACACACACACACACATATATATTCAATATGTTTTTCTCCAATATTTTTATGTTCCTCTGGTTTCAATTGGTTTCTTACAAATTTTGTCAAATGAAAAACCCTAATTTCGAAACTAAGTTCGTTCCTTCAAGTTCAACTTCGTGTAGTACGGATTTGGGACTGAATATGTCAGGGAAAACAGTTCGGTATGATGAAATATCACTTAGGTGTTGGGAAGGAGATGCTATCACGTATCAGAACCAAACTTGATCGTTCGAGCGATTCTGCACAATTTGATTATCTGTAGTTATAAGCCTGTGATGAGCAACTTAAAACAGTTACTTTGGCCAATGTTTGATTTTCTAGCCGCTTTACAGCTTATAATACCAATTTTTAAGGTTGAAGCGTGTGCGATAATGTTAGATTATTGCTTGTGACGTATTCTACTAGGGCTTTTCTTTAGGTATGAATTATTGACTTCTTCTGCCTCGAAAGCGTGGCTGCTGGAAAAATGTTTTTATTCAAATTTTCAACTTTTTAGTACCTTCAGAATCAGATACCAAATTAATTAAGTTTATAACTGTTTCCCGAGATGTTTACGAACTTAGGCTTATTCTGGATGCTTATGTTCACAATCGTTATATTTTACTGAACGACTTTATGTTAAGTTGGTTTTGTTTATTGTTGGGAATTACACGTTTTCTTTATTAAAAGGATCTCTGATAACCTTTATCTTTATAATGGATTACCTTGTCTAAGAATTAAACATTGTGGGTTGAAGGATTGTTTTCTAAAGCTTTCCTGTTAGTAGTTTATTTAATCAGGATAGGCCTCTTGCTGCATATGCATCATTAGATCTTCATTAGCAACATCCACAAATTACCGAGTATTATCAGTCTTCAAAGTAGGCTTTTATTCACTTTATTCCCTGCTTCTTTTTATTTGCATGAAGGACTCAGCCCTGCTTCTAGAATACAGTTAGTTCATCAGTTTCAGTATCAGCTTTATTTTTCTTTAGGTCGTGTTTAGTGTTTTGCATCACGTTTTTCACATCCTTATTCGGGTTAATAATAAGTTGTTAGTTTTGCGAAATATGCACAAGGAAAGCAGCACATAAATGGAGTATAGTTGTAAAAATCTATGTATGGATGAGAACTTGAAGTCTTAACTCTTGGGTCTACGCATAATGGTTTGCTATTTGAAGTAAATATACTAACATTGCATTCTTAGATGTAGTTTGACCACACTGGTCTAATCTTGTTTTGTGAAAGGCCTTTATATTTTCATTTAGGAATACTGGACGGTACAGATATTTTTCAGCTCCTATATTAATAAGTGATTTTTGCTGCAGATATGAAGATGAGCCACCAGAACCCGAGATTGAGGTAAGAAATAATTAGTTCAATTCTATTTGAAAGAAAGTAATTAACTTCTCTTTTTGAAGTTGATTAATTTTAGTGACTGAAAATCATGTACAGGAAGGTGCTGAAGAAGAATTGGATAATAATAACAACGATGATGTTCCTGGTGAACCTGTTGAAGCTGAGGAAAAGGAAGATGAAGAACCTGTTGAACGTGTGCGTAAAACCTCAAAATTTATGACTAAGTATGAGCGTGCTAGGATTTTGGGTACACGTGCCCTCCAAATCAGGTTCCCTTCTTTTACATTTGTCACATCCAAATTTGTGCGTGCATCAAGTTGATAAATAGTATGATGGTTTTTTTTTTCTCTCTCTTGGGCAGCATGAATGCTCCAGTGATGGTTGAGTTGGAGGGTGAGACTGATCCACTTGAGGTTAGATATTTAATTACATTAAGCTAGATGTATTTTTGTTGCCTCATATGTGCATCCCATGGTTAGTACACGTGCTAAAAAGAAAAGGGTTAAATTTATATCATACAAAAATGCCCTCAAACTCTGAGGTTGGGGGTTATTAAATTGAAGGCTTTCAAACAGTAGAGTATAATTGAAACTAACGTCAAAGCTTATGGCAATTTATACGATGATTATTTACAGTTTCAATCAACCCATGTTGAACCCACAGAAATACCTGCCATTCACGGGTTTGTAATAGCTCATGCTTTTTTTTTATTAGTGAATGAGGATTTATGCTTGTCCATCTGGGTGCTCTGCATTTTTTTTGCTTGCCTCTGGCATTGTTCTTGGCATCTTGTCTAATCCTGTACTGTCTTAGATTGCAATGAAGGAGCTTCGTGAGCGGAAGATACCCTTCACCATCCGTCGCTACCTGCCAGATGGAAGGTTAGGCCTCTTAGATCTTGTTCTTTTTATCTCTAGCATTCCGATTCACCTGCCTGCAGGGGTGTGCAGAAAACTGAAAACAAGCGAACCAGTTGGTTGGGTTGGTTCTTTATGTGCGTGTATATGAATGTATAAGTTTAGAGAGACCTACTGTATTGGGTATTGAACTATGTCTTATTAGAGAAAAAGAATTAGTCTGTGATGTTGGATCTCGAATTTTTCCAAAACCAAACCAAACCAAACATTCTTTCTAGTTTTCTGTAGGACTAAATTAGTGGAACTCTGTGTGTTAATTTTGGACAGTTATGAAGACTGGGGCGTTGATGAATTGATTGTGGAGGACTCTTGGAAAAGGCAAGTTGGCGGCGCTTGATTGATCTGTGTGGGTGTTGTTACGATATATGAGATAATAGATTTCAATTTCACAGCGATTAGCGCACCAGTTCCCATTTGAAAAGGAGAATACGACTACTATGTTTTGTTGCATAACTCTATTCTCTATAATATATATTGGAAAGGAACTTCTGTTACTGTATTGACTAGCATTGTTTTTACCATTATAAACCATGCCATAACAATTCGACTT

mRNA sequence

GAGTTGACGTCCGCCGTCGTCAGTTACATCGGCAATTGAGGGTTTTAGGGTGTAACCACTAACCAGAGAGGCGACACAGTTTCTGTCGATCATCAATGGCGGACGACGATTACAATGACCTCGACATGGGGAATACTGGACGGTACAGATATTTTTCAGCTCCTATATTAATAAGTGATTTTTGCTGCAGATATGAAGATGAGCCACCAGAACCCGAGATTGAGGAAGGTGCTGAAGAAGAATTGGATAATAATAACAACGATGATGTTCCTGGTGAACCTGTTGAAGCTGAGGAAAAGGAAGATGAAGAACCTGTTGAACGTGTGCGTAAAACCTCAAAATTTATGACTAAGTATGAGCGTGCTAGGATTTTGGGTACACGTGCCCTCCAAATCAGCATGAATGCTCCAGTGATGGTTGAGTTGGAGGGTGAGACTGATCCACTTGAGATTGCAATGAAGGAGCTTCGTGAGCGGAAGATACCCTTCACCATCCGTCGCTACCTGCCAGATGGAAGGTTAGGCCTCTTAGATCTTGTTCTTTTTATCTCTAGCATTCCGATTCACCTGCCTGCAGGGGTGTGCAGAAAACTGAAAACAAGCGAACCAGTTGGTTGGGTTGGTTCTTTATGTGCTTATGAAGACTGGGGCGTTGATGAATTGATTGTGGAGGACTCTTGGAAAAGGCAAGTTGGCGGCGCTTGATTGATCTGTGTGGGTGTTGTTACGATATATGAGATAATAGATTTCAATTTCACAGCGATTAGCGCACCAGTTCCCATTTGAAAAGGAGAATACGACTACTATGTTTTGTTGCATAACTCTATTCTCTATAATATATATTGGAAAGGAACTTCTGTTACTGTATTGACTAGCATTGTTTTTACCATTATAAACCATGCCATAACAATTCGACTT

Coding sequence (CDS)

ATGGCGGACGACGATTACAATGACCTCGACATGGGGAATACTGGACGGTACAGATATTTTTCAGCTCCTATATTAATAAGTGATTTTTGCTGCAGATATGAAGATGAGCCACCAGAACCCGAGATTGAGGAAGGTGCTGAAGAAGAATTGGATAATAATAACAACGATGATGTTCCTGGTGAACCTGTTGAAGCTGAGGAAAAGGAAGATGAAGAACCTGTTGAACGTGTGCGTAAAACCTCAAAATTTATGACTAAGTATGAGCGTGCTAGGATTTTGGGTACACGTGCCCTCCAAATCAGCATGAATGCTCCAGTGATGGTTGAGTTGGAGGGTGAGACTGATCCACTTGAGATTGCAATGAAGGAGCTTCGTGAGCGGAAGATACCCTTCACCATCCGTCGCTACCTGCCAGATGGAAGGTTAGGCCTCTTAGATCTTGTTCTTTTTATCTCTAGCATTCCGATTCACCTGCCTGCAGGGGTGTGCAGAAAACTGAAAACAAGCGAACCAGTTGGTTGGGTTGGTTCTTTATGTGCTTATGAAGACTGGGGCGTTGATGAATTGATTGTGGAGGACTCTTGGAAAAGGCAAGTTGGCGGCGCTTGA

Protein sequence

MADDDYNDLDMGNTGRYRYFSAPILISDFCCRYEDEPPEPEIEEGAEEELDNNNNDDVPGEPVEAEEKEDEEPVERVRKTSKFMTKYERARILGTRALQISMNAPVMVELEGETDPLEIAMKELRERKIPFTIRRYLPDGRLGLLDLVLFISSIPIHLPAGVCRKLKTSEPVGWVGSLCAYEDWGVDELIVEDSWKRQVGGA

Homology

[Close]

BLAST of Clc05G09970 vs. NCBI nr
Match: KAG6574158.1 (DNA-directed RNA polymerases II, IV and V subunit 6A, partial [Cucurbita argyrosperma subsp. sororia])

HSP 1 Score: 256.1 bits (653), Expect = 2.5e-64
Identity = 137/186 (73.66%), Postives = 142/186 (76.34%), Query Frame = 0


Query: 17  YRYFSAPILISDFCCRYEDEPPEPEIEEGAEEELDNNNNDDVPGEPVEAEEKEDEEPVER 76
           Y+Y S  ILIS FCCRYEDEPPEPE+EEGAEEELDNNN DDVPGEPVEAE+KEDEEP+ER
Sbjct: 2   YKYLSTLILISVFCCRYEDEPPEPEMEEGAEEELDNNNADDVPGEPVEAEDKEDEEPIER 61

Query: 77  VRKTSKFMTKYERARILGTRALQISMNAPVMVELEGETDPLEIAMKELRERKIPFTIRRY 136
           VRKTSKFMTKYERARILGTRALQISMNAPVMVELEGETDPLEIAMKELRERKIPFTIRRY
Sbjct: 62  VRKTSKFMTKYERARILGTRALQISMNAPVMVELEGETDPLEIAMKELRERKIPFTIRRY 121

Query: 137 LPDGRLGLLDLVLFISSIPIHLPAGVCRKLKTSEPVGWVGSLCAYEDWGVDELIVEDSWK 196
           LPDG                                       +YEDWGVDELIVEDSWK
Sbjct: 122 LPDG---------------------------------------SYEDWGVDELIVEDSWK 148

Query: 197 RQVGGA 203
           RQVGGA
Sbjct: 182 RQVGGA 148

[Close]

BLAST of Clc05G09970 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] >KAG6576740.1 DNA-directed RNA polymerases II, IV and V subunit 6A, partial [Cucurbita argyrosperma subsp. sororia] >KAG7014784.1 DNA-directed RNA polymerases II, IV and V subunit 6A [Cucurbita argyrosperma subsp. argyrosperma])

HSP 1 Score: 249.2 bits (635), Expect = 3.0e-62
Identity = 140/202 (69.31%), Postives = 143/202 (70.79%), Query Frame = 0


Query: 1   MADDDYNDLDMGNTGRYRYFSAPILISDFCCRYEDEPPEPEIEEGAEEELDNNNNDDVPG 60
           MADDDYNDLDMG                    Y+DEPPEPE+EEGAEEELDNNNNDDVPG
Sbjct: 1   MADDDYNDLDMG--------------------YDDEPPEPELEEGAEEELDNNNNDDVPG 60

Query: 61  EPVEAEEKEDEEPVERVRKTSKFMTKYERARILGTRALQISMNAPVMVELEGETDPLEIA 120
           EPVEAEEKEDEEPVERVRKTSKFMTKYERARILGTRALQISMNAPVMVELEGETDPLEIA
Sbjct: 61  EPVEAEEKEDEEPVERVRKTSKFMTKYERARILGTRALQISMNAPVMVELEGETDPLEIA 120

Query: 121 MKELRERKIPFTIRRYLPDGRLGLLDLVLFISSIPIHLPAGVCRKLKTSEPVGWVGSLCA 180
           MKELRERKIPFTIRRYLPDG                                       +
Sbjct: 121 MKELRERKIPFTIRRYLPDG---------------------------------------S 143

Query: 181 YEDWGVDELIVEDSWKRQVGGA 203
           YEDWGVDELIVEDSWKRQVGGA
Sbjct: 181 YEDWGVDELIVEDSWKRQVGGA 143

[Close]

BLAST of Clc05G09970 vs. NCBI nr
Match: XP_022141284.1 (DNA-directed RNA polymerases II, IV and V subunit 6A [Momordica charantia])

HSP 1 Score: 246.1 bits (627), Expect = 2.5e-61
Identity = 140/202 (69.31%), Postives = 142/202 (70.30%), Query Frame = 0


Query: 1   MADDDYNDLDMGNTGRYRYFSAPILISDFCCRYEDEPPEPEIEEGAEEELDNNNNDDVPG 60
           MADDDYNDLDMG                    YEDEPPEPE+EEGAEEELDNNNNDDV G
Sbjct: 1   MADDDYNDLDMG--------------------YEDEPPEPEMEEGAEEELDNNNNDDVLG 60

Query: 61  EPVEAEEKEDEEPVERVRKTSKFMTKYERARILGTRALQISMNAPVMVELEGETDPLEIA 120
           EPVEAEEKEDEEPVERVRKTSKFMTKYERARILGTRALQISMNAPVMVELEGETDPLEIA
Sbjct: 61  EPVEAEEKEDEEPVERVRKTSKFMTKYERARILGTRALQISMNAPVMVELEGETDPLEIA 120

Query: 121 MKELRERKIPFTIRRYLPDGRLGLLDLVLFISSIPIHLPAGVCRKLKTSEPVGWVGSLCA 180
           MKELRERKIPFTIRRYLPDG                                       +
Sbjct: 121 MKELRERKIPFTIRRYLPDG---------------------------------------S 143

Query: 181 YEDWGVDELIVEDSWKRQVGGA 203
           YEDWGVDELIVEDSWKRQVGGA
Sbjct: 181 YEDWGVDELIVEDSWKRQVGGA 143

[Close]

BLAST of Clc05G09970 vs. NCBI nr
Match: XP_004140788.1 (DNA-directed RNA polymerases II, IV and V subunit 6A [Cucumis sativus] >KGN57349.1 hypothetical protein Csa_009934 [Cucumis sativus])

HSP 1 Score: 244.6 bits (623), Expect = 7.4e-61
Identity = 137/202 (67.82%), Postives = 141/202 (69.80%), Query Frame = 0


Query: 1   MADDDYNDLDMGNTGRYRYFSAPILISDFCCRYEDEPPEPEIEEGAEEELDNNNNDDVPG 60
           MADDDYNDLDMG                    YEDEPPEPEIEEGAEEEL+NNNNDD+PG
Sbjct: 1   MADDDYNDLDMG--------------------YEDEPPEPEIEEGAEEELENNNNDDIPG 60

Query: 61  EPVEAEEKEDEEPVERVRKTSKFMTKYERARILGTRALQISMNAPVMVELEGETDPLEIA 120
           EPVEAEEKEDEEP+ R RKTSKFMTKYERARILGTRALQISMNAPVMVELEGETDPLEIA
Sbjct: 61  EPVEAEEKEDEEPIVRARKTSKFMTKYERARILGTRALQISMNAPVMVELEGETDPLEIA 120

Query: 121 MKELRERKIPFTIRRYLPDGRLGLLDLVLFISSIPIHLPAGVCRKLKTSEPVGWVGSLCA 180
           MKELRERKIPFTIRRYLPDG                                       +
Sbjct: 121 MKELRERKIPFTIRRYLPDG---------------------------------------S 143

Query: 181 YEDWGVDELIVEDSWKRQVGGA 203
           YEDWGVDELIVEDSWKRQVGGA
Sbjct: 181 YEDWGVDELIVEDSWKRQVGGA 143

[Close]

BLAST of Clc05G09970 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] >KAG7013212.1 DNA-directed RNA polymerases II, IV and V subunit 6A [Cucurbita argyrosperma subsp. argyrosperma])

HSP 1 Score: 244.2 bits (622), Expect = 9.7e-61
Identity = 137/202 (67.82%), Postives = 142/202 (70.30%), Query Frame = 0


Query: 1   MADDDYNDLDMGNTGRYRYFSAPILISDFCCRYEDEPPEPEIEEGAEEELDNNNNDDVPG 60
           MADDDYND+DMG                    YEDEPPEPE+EEGAEEELDNNN DDVPG
Sbjct: 1   MADDDYNDVDMG--------------------YEDEPPEPEMEEGAEEELDNNNADDVPG 60

Query: 61  EPVEAEEKEDEEPVERVRKTSKFMTKYERARILGTRALQISMNAPVMVELEGETDPLEIA 120
           EPVEAE+KEDEEP+ERVRKTSKFMTKYERARILGTRALQISMNAPVMVELEGETDPLEIA
Sbjct: 61  EPVEAEDKEDEEPIERVRKTSKFMTKYERARILGTRALQISMNAPVMVELEGETDPLEIA 120

Query: 121 MKELRERKIPFTIRRYLPDGRLGLLDLVLFISSIPIHLPAGVCRKLKTSEPVGWVGSLCA 180
           MKELRERKIPFTIRRYLPDG                                       +
Sbjct: 121 MKELRERKIPFTIRRYLPDG---------------------------------------S 143

Query: 181 YEDWGVDELIVEDSWKRQVGGA 203
           YEDWGVDELIVEDSWKRQVGGA
Sbjct: 181 YEDWGVDELIVEDSWKRQVGGA 143

[Close]

BLAST of Clc05G09970 vs. ExPASy Swiss-Prot
Match: Q9FJ98 (DNA-directed RNA polymerases II, IV and V subunit 6A OS=Arabidopsis thaliana OX=3702 GN=NRPB6A PE=1 SV=1)

HSP 1 Score: 205.7 bits (522), Expect = 5.0e-52
Identity = 119/201 (59.20%), Postives = 133/201 (66.17%), Query Frame = 0


Query: 1   MADDDYNDLDMGNTGRYRYFSAPILISDFCCRYEDEPPEPEIEEGAEEELDNNNNDDVPG 60
           MAD+DYND+D  + G                 YEDEP EPEIEEG EE+++   NDDV G
Sbjct: 1   MADEDYNDVD--DLG-----------------YEDEPAEPEIEEGVEEDVEMKENDDVNG 60

Query: 61  EPVEAEEKEDEEPVERVRKTSKFMTKYERARILGTRALQISMNAPVMVELEGETDPLEIA 120
           EP+EAE+K + EPV+R RKTSKFMTKYERARILGTRALQISMNAPVMVELEGETDPLEIA
Sbjct: 61  EPIEAEDKVETEPVQRPRKTSKFMTKYERARILGTRALQISMNAPVMVELEGETDPLEIA 120

Query: 121 MKELRERKIPFTIRRYLPDGRLGLLDLVLFISSIPIHLPAGVCRKLKTSEPVGWVGSLCA 180
           MKELR+RKIPFTIRRYLPDG                                       +
Sbjct: 121 MKELRQRKIPFTIRRYLPDG---------------------------------------S 143

Query: 181 YEDWGVDELIVEDSWKRQVGG 202
           +E+WGVDELIVEDSWKRQVGG
Sbjct: 181 FEEWGVDELIVEDSWKRQVGG 143

[Close]

BLAST of Clc05G09970 vs. ExPASy Swiss-Prot
Match: Q9SJ96 (DNA-directed RNA polymerases II and V subunit 6B OS=Arabidopsis thaliana OX=3702 GN=NRPB6B PE=1 SV=1)

HSP 1 Score: 197.6 bits (501), Expect = 1.4e-49
Identity = 117/201 (58.21%), Postives = 129/201 (64.18%), Query Frame = 0


Query: 1   MADDDYNDLDMGNTGRYRYFSAPILISDFCCRYEDEPPEPEIEEGAEEELDNNNNDDVPG 60
           MADDDYN++D  + G                 YEDEP EPEIEEG EE+ D   NDDV  
Sbjct: 1   MADDDYNEVD--DLG-----------------YEDEPAEPEIEEGVEEDADIKENDDVNV 60

Query: 61  EPVEAEEKEDEEPVERVRKTSKFMTKYERARILGTRALQISMNAPVMVELEGETDPLEIA 120
           +P+E E+K + EPV+R RKTSKFMTKYERARILGTRALQISMNAPVMVELEGETDPLEIA
Sbjct: 61  DPLETEDKVETEPVQRPRKTSKFMTKYERARILGTRALQISMNAPVMVELEGETDPLEIA 120

Query: 121 MKELRERKIPFTIRRYLPDGRLGLLDLVLFISSIPIHLPAGVCRKLKTSEPVGWVGSLCA 180
           MKELR+RKIPFTIRRYLPD                                        +
Sbjct: 121 MKELRQRKIPFTIRRYLPD---------------------------------------MS 143

Query: 181 YEDWGVDELIVEDSWKRQVGG 202
           YE+WGVDELIVEDSWKRQVGG
Sbjct: 181 YEEWGVDELIVEDSWKRQVGG 143

[Close]

BLAST of Clc05G09970 vs. ExPASy Swiss-Prot
Match: P61219 (DNA-directed RNA polymerases I, II, and III subunit RPABC2 OS=Mus musculus OX=10090 GN=Polr2f PE=2 SV=1)

HSP 1 Score: 105.5 bits (262), Expect = 7.0e-22
Identity = 72/154 (46.75%), Postives = 86/154 (55.84%), Query Frame = 0


Query: 41  EIEEGAEEELDNNNNDDVPG-EPVEAEEKEDEEPVERVRKTSKFMTKYERARILGTRALQ 100
           ++EE  +E LD+  N +  G E VE     +     + R T+ +MTKYERAR+LGTRALQ
Sbjct: 15  DVEE--DEGLDDLENAEEEGQENVEILPSGERPQANQKRITTPYMTKYERARVLGTRALQ 74

Query: 101 ISMNAPVMVELEGETDPLEIAMKELRERKIPFTIRRYLPDGRLGLLDLVLFISSIPIHLP 160
           I+M APVMVELEGETDPL IAMKEL+ RKIP  IRRYLPDG                   
Sbjct: 75  IAMCAPVMVELEGETDPLLIAMKELKARKIPIIIRRYLPDG------------------- 127

Query: 161 AGVCRKLKTSEPVGWVGSLCAYEDWGVDELIVED 194
                               +YEDWGVDELI+ D
Sbjct: 135 --------------------SYEDWGVDELIISD 127

[Close]

BLAST of Clc05G09970 vs. ExPASy Swiss-Prot
Match: O88828 (DNA-directed RNA polymerases I, II, and III subunit RPABC2 OS=Rattus norvegicus OX=10116 GN=Polr2f PE=1 SV=1)

HSP 1 Score: 105.5 bits (262), Expect = 7.0e-22
Identity = 72/154 (46.75%), Postives = 86/154 (55.84%), Query Frame = 0


Query: 41  EIEEGAEEELDNNNNDDVPG-EPVEAEEKEDEEPVERVRKTSKFMTKYERARILGTRALQ 100
           ++EE  +E LD+  N +  G E VE     +     + R T+ +MTKYERAR+LGTRALQ
Sbjct: 15  DVEE--DEGLDDLENAEEEGQENVEILPSGERPQANQKRITTPYMTKYERARVLGTRALQ 74

Query: 101 ISMNAPVMVELEGETDPLEIAMKELRERKIPFTIRRYLPDGRLGLLDLVLFISSIPIHLP 160
           I+M APVMVELEGETDPL IAMKEL+ RKIP  IRRYLPDG                   
Sbjct: 75  IAMCAPVMVELEGETDPLLIAMKELKARKIPIIIRRYLPDG------------------- 127

Query: 161 AGVCRKLKTSEPVGWVGSLCAYEDWGVDELIVED 194
                               +YEDWGVDELI+ D
Sbjct: 135 --------------------SYEDWGVDELIISD 127

[Close]

BLAST of Clc05G09970 vs. ExPASy Swiss-Prot
Match: P61217 (DNA-directed RNA polymerases I, II, and III subunit RPABC2 OS=Cricetulus griseus OX=10029 GN=POLR2F PE=2 SV=1)

HSP 1 Score: 105.1 bits (261), Expect = 9.2e-22
Identity = 72/154 (46.75%), Postives = 86/154 (55.84%), Query Frame = 0


Query: 41  EIEEGAEEELDNNNNDDVPG-EPVEAEEKEDEEPVERVRKTSKFMTKYERARILGTRALQ 100
           ++EE  +E LD+  N +  G E VE     +     + R T+ +MTKYERAR+LGTRALQ
Sbjct: 15  DVEE--DEGLDDLENAEEEGQENVEILPSGERPQANQKRITTPYMTKYERARVLGTRALQ 74

Query: 101 ISMNAPVMVELEGETDPLEIAMKELRERKIPFTIRRYLPDGRLGLLDLVLFISSIPIHLP 160
           I+M APVMVELEGETDPL IAMKEL+ RKIP  IRRYLPDG                   
Sbjct: 75  IAMCAPVMVELEGETDPLLIAMKELKARKIPIIIRRYLPDG------------------- 127

Query: 161 AGVCRKLKTSEPVGWVGSLCAYEDWGVDELIVED 194
                               +YEDWGVDELI+ D
Sbjct: 135 --------------------SYEDWGVDELIITD 127

[Close]

BLAST of Clc05G09970 vs. ExPASy TrEMBL
Match: A0A6J1J2R7 (DNA-directed RNA polymerases II, IV and V subunit 6A-like OS=Cucurbita maxima OX=3661 GN=LOC111482872 PE=3 SV=1)

HSP 1 Score: 249.2 bits (635), Expect = 1.5e-62
Identity = 140/202 (69.31%), Postives = 143/202 (70.79%), Query Frame = 0


Query: 1   MADDDYNDLDMGNTGRYRYFSAPILISDFCCRYEDEPPEPEIEEGAEEELDNNNNDDVPG 60
           MADDDYNDLDMG                    Y+DEPPEPE+EEGAEEELDNNNNDDVPG
Sbjct: 1   MADDDYNDLDMG--------------------YDDEPPEPELEEGAEEELDNNNNDDVPG 60

Query: 61  EPVEAEEKEDEEPVERVRKTSKFMTKYERARILGTRALQISMNAPVMVELEGETDPLEIA 120
           EPVEAEEKEDEEPVERVRKTSKFMTKYERARILGTRALQISMNAPVMVELEGETDPLEIA
Sbjct: 61  EPVEAEEKEDEEPVERVRKTSKFMTKYERARILGTRALQISMNAPVMVELEGETDPLEIA 120

Query: 121 MKELRERKIPFTIRRYLPDGRLGLLDLVLFISSIPIHLPAGVCRKLKTSEPVGWVGSLCA 180
           MKELRERKIPFTIRRYLPDG                                       +
Sbjct: 121 MKELRERKIPFTIRRYLPDG---------------------------------------S 143

Query: 181 YEDWGVDELIVEDSWKRQVGGA 203
           YEDWGVDELIVEDSWKRQVGGA
Sbjct: 181 YEDWGVDELIVEDSWKRQVGGA 143

[Close]

BLAST of Clc05G09970 vs. ExPASy TrEMBL
Match: A0A6J1E614 (DNA-directed RNA polymerases II, IV and V subunit 6A-like OS=Cucurbita moschata OX=3662 GN=LOC111430903 PE=3 SV=1)

HSP 1 Score: 249.2 bits (635), Expect = 1.5e-62
Identity = 140/202 (69.31%), Postives = 143/202 (70.79%), Query Frame = 0


Query: 1   MADDDYNDLDMGNTGRYRYFSAPILISDFCCRYEDEPPEPEIEEGAEEELDNNNNDDVPG 60
           MADDDYNDLDMG                    Y+DEPPEPE+EEGAEEELDNNNNDDVPG
Sbjct: 1   MADDDYNDLDMG--------------------YDDEPPEPELEEGAEEELDNNNNDDVPG 60

Query: 61  EPVEAEEKEDEEPVERVRKTSKFMTKYERARILGTRALQISMNAPVMVELEGETDPLEIA 120
           EPVEAEEKEDEEPVERVRKTSKFMTKYERARILGTRALQISMNAPVMVELEGETDPLEIA
Sbjct: 61  EPVEAEEKEDEEPVERVRKTSKFMTKYERARILGTRALQISMNAPVMVELEGETDPLEIA 120

Query: 121 MKELRERKIPFTIRRYLPDGRLGLLDLVLFISSIPIHLPAGVCRKLKTSEPVGWVGSLCA 180
           MKELRERKIPFTIRRYLPDG                                       +
Sbjct: 121 MKELRERKIPFTIRRYLPDG---------------------------------------S 143

Query: 181 YEDWGVDELIVEDSWKRQVGGA 203
           YEDWGVDELIVEDSWKRQVGGA
Sbjct: 181 YEDWGVDELIVEDSWKRQVGGA 143

[Close]

BLAST of Clc05G09970 vs. ExPASy TrEMBL
Match: A0A6J1CI61 (DNA-directed RNA polymerases II, IV and V subunit 6A OS=Momordica charantia OX=3673 GN=LOC111011721 PE=3 SV=1)

HSP 1 Score: 246.1 bits (627), Expect = 1.2e-61
Identity = 140/202 (69.31%), Postives = 142/202 (70.30%), Query Frame = 0


Query: 1   MADDDYNDLDMGNTGRYRYFSAPILISDFCCRYEDEPPEPEIEEGAEEELDNNNNDDVPG 60
           MADDDYNDLDMG                    YEDEPPEPE+EEGAEEELDNNNNDDV G
Sbjct: 1   MADDDYNDLDMG--------------------YEDEPPEPEMEEGAEEELDNNNNDDVLG 60

Query: 61  EPVEAEEKEDEEPVERVRKTSKFMTKYERARILGTRALQISMNAPVMVELEGETDPLEIA 120
           EPVEAEEKEDEEPVERVRKTSKFMTKYERARILGTRALQISMNAPVMVELEGETDPLEIA
Sbjct: 61  EPVEAEEKEDEEPVERVRKTSKFMTKYERARILGTRALQISMNAPVMVELEGETDPLEIA 120

Query: 121 MKELRERKIPFTIRRYLPDGRLGLLDLVLFISSIPIHLPAGVCRKLKTSEPVGWVGSLCA 180
           MKELRERKIPFTIRRYLPDG                                       +
Sbjct: 121 MKELRERKIPFTIRRYLPDG---------------------------------------S 143

Query: 181 YEDWGVDELIVEDSWKRQVGGA 203
           YEDWGVDELIVEDSWKRQVGGA
Sbjct: 181 YEDWGVDELIVEDSWKRQVGGA 143

[Close]

BLAST of Clc05G09970 vs. ExPASy TrEMBL
Match: A0A0A0L8L8 (Uncharacterized protein OS=Cucumis sativus OX=3659 GN=Csa_3G180370 PE=3 SV=1)

HSP 1 Score: 244.6 bits (623), Expect = 3.6e-61
Identity = 137/202 (67.82%), Postives = 141/202 (69.80%), Query Frame = 0


Query: 1   MADDDYNDLDMGNTGRYRYFSAPILISDFCCRYEDEPPEPEIEEGAEEELDNNNNDDVPG 60
           MADDDYNDLDMG                    YEDEPPEPEIEEGAEEEL+NNNNDD+PG
Sbjct: 1   MADDDYNDLDMG--------------------YEDEPPEPEIEEGAEEELENNNNDDIPG 60

Query: 61  EPVEAEEKEDEEPVERVRKTSKFMTKYERARILGTRALQISMNAPVMVELEGETDPLEIA 120
           EPVEAEEKEDEEP+ R RKTSKFMTKYERARILGTRALQISMNAPVMVELEGETDPLEIA
Sbjct: 61  EPVEAEEKEDEEPIVRARKTSKFMTKYERARILGTRALQISMNAPVMVELEGETDPLEIA 120

Query: 121 MKELRERKIPFTIRRYLPDGRLGLLDLVLFISSIPIHLPAGVCRKLKTSEPVGWVGSLCA 180
           MKELRERKIPFTIRRYLPDG                                       +
Sbjct: 121 MKELRERKIPFTIRRYLPDG---------------------------------------S 143

Query: 181 YEDWGVDELIVEDSWKRQVGGA 203
           YEDWGVDELIVEDSWKRQVGGA
Sbjct: 181 YEDWGVDELIVEDSWKRQVGGA 143

[Close]

BLAST of Clc05G09970 vs. ExPASy TrEMBL
Match: A0A6J1HXF2 (DNA-directed RNA polymerases II, IV and V subunit 6A-like OS=Cucurbita maxima OX=3661 GN=LOC111467735 PE=3 SV=1)

HSP 1 Score: 244.2 bits (622), Expect = 4.7e-61
Identity = 137/202 (67.82%), Postives = 142/202 (70.30%), Query Frame = 0


Query: 1   MADDDYNDLDMGNTGRYRYFSAPILISDFCCRYEDEPPEPEIEEGAEEELDNNNNDDVPG 60
           MADDDYND+DMG                    YEDEPPEPE+EEGAEEELDNNN DDVPG
Sbjct: 1   MADDDYNDVDMG--------------------YEDEPPEPEMEEGAEEELDNNNADDVPG 60

Query: 61  EPVEAEEKEDEEPVERVRKTSKFMTKYERARILGTRALQISMNAPVMVELEGETDPLEIA 120
           EPVEAE+KEDEEP+ERVRKTSKFMTKYERARILGTRALQISMNAPVMVELEGETDPLEIA
Sbjct: 61  EPVEAEDKEDEEPIERVRKTSKFMTKYERARILGTRALQISMNAPVMVELEGETDPLEIA 120

Query: 121 MKELRERKIPFTIRRYLPDGRLGLLDLVLFISSIPIHLPAGVCRKLKTSEPVGWVGSLCA 180
           MKELRERKIPFTIRRYLPDG                                       +
Sbjct: 121 MKELRERKIPFTIRRYLPDG---------------------------------------S 143

Query: 181 YEDWGVDELIVEDSWKRQVGGA 203
           YEDWGVDELIVEDSWKRQVGGA
Sbjct: 181 YEDWGVDELIVEDSWKRQVGGA 143

[Close]

BLAST of Clc05G09970 vs. TAIR 10
Match: AT5G51940.1 (RNA polymerase Rpb6 )

HSP 1 Score: 205.7 bits (522), Expect = 3.5e-53
Identity = 119/201 (59.20%), Postives = 133/201 (66.17%), Query Frame = 0


Query: 1   MADDDYNDLDMGNTGRYRYFSAPILISDFCCRYEDEPPEPEIEEGAEEELDNNNNDDVPG 60
           MAD+DYND+D  + G                 YEDEP EPEIEEG EE+++   NDDV G
Sbjct: 1   MADEDYNDVD--DLG-----------------YEDEPAEPEIEEGVEEDVEMKENDDVNG 60

Query: 61  EPVEAEEKEDEEPVERVRKTSKFMTKYERARILGTRALQISMNAPVMVELEGETDPLEIA 120
           EP+EAE+K + EPV+R RKTSKFMTKYERARILGTRALQISMNAPVMVELEGETDPLEIA
Sbjct: 61  EPIEAEDKVETEPVQRPRKTSKFMTKYERARILGTRALQISMNAPVMVELEGETDPLEIA 120

Query: 121 MKELRERKIPFTIRRYLPDGRLGLLDLVLFISSIPIHLPAGVCRKLKTSEPVGWVGSLCA 180
           MKELR+RKIPFTIRRYLPDG                                       +
Sbjct: 121 MKELRQRKIPFTIRRYLPDG---------------------------------------S 143

Query: 181 YEDWGVDELIVEDSWKRQVGG 202
           +E+WGVDELIVEDSWKRQVGG
Sbjct: 181 FEEWGVDELIVEDSWKRQVGG 143

[Close]

BLAST of Clc05G09970 vs. TAIR 10
Match: AT2G04630.1 (RNA polymerase Rpb6 )

HSP 1 Score: 197.6 bits (501), Expect = 9.7e-51
Identity = 117/201 (58.21%), Postives = 129/201 (64.18%), Query Frame = 0


Query: 1   MADDDYNDLDMGNTGRYRYFSAPILISDFCCRYEDEPPEPEIEEGAEEELDNNNNDDVPG 60
           MADDDYN++D  + G                 YEDEP EPEIEEG EE+ D   NDDV  
Sbjct: 1   MADDDYNEVD--DLG-----------------YEDEPAEPEIEEGVEEDADIKENDDVNV 60

Query: 61  EPVEAEEKEDEEPVERVRKTSKFMTKYERARILGTRALQISMNAPVMVELEGETDPLEIA 120
           +P+E E+K + EPV+R RKTSKFMTKYERARILGTRALQISMNAPVMVELEGETDPLEIA
Sbjct: 61  DPLETEDKVETEPVQRPRKTSKFMTKYERARILGTRALQISMNAPVMVELEGETDPLEIA 120

Query: 121 MKELRERKIPFTIRRYLPDGRLGLLDLVLFISSIPIHLPAGVCRKLKTSEPVGWVGSLCA 180
           MKELR+RKIPFTIRRYLPD                                        +
Sbjct: 121 MKELRQRKIPFTIRRYLPD---------------------------------------MS 143

Query: 181 YEDWGVDELIVEDSWKRQVGG 202
           YE+WGVDELIVEDSWKRQVGG
Sbjct: 181 YEEWGVDELIVEDSWKRQVGG 143

The following BLAST results are available for this feature:

BLAST of Clc05G09970 vs. NCBI nr


Match Name	E-value	Identity	Description
KAG6574158.1	2.5e-64	73.66	DNA-directed RNA polymerases II, IV and V subunit 6A, partial [Cucurbita argyros...	[more]
XP_022923151.1	3.0e-62	69.31	DNA-directed RNA polymerases II, IV and V subunit 6A-like [Cucurbita moschata] >...	[more]
XP_022141284.1	2.5e-61	69.31	DNA-directed RNA polymerases II, IV and V subunit 6A [Momordica charantia]	[more]
XP_004140788.1	7.4e-61	67.82	DNA-directed RNA polymerases II, IV and V subunit 6A [Cucumis sativus] >KGN57349...	[more]
XP_022944842.1	9.7e-61	67.82	DNA-directed RNA polymerases II, IV and V subunit 6A-like [Cucurbita moschata] >...	[more]

BLAST of Clc05G09970 vs. ExPASy Swiss-Prot


Match Name	E-value	Identity	Description
Q9FJ98	5.0e-52	59.20	DNA-directed RNA polymerases II, IV and V subunit 6A OS=Arabidopsis thaliana OX=...	[more]
Q9SJ96	1.4e-49	58.21	DNA-directed RNA polymerases II and V subunit 6B OS=Arabidopsis thaliana OX=3702...	[more]
P61219	7.0e-22	46.75	DNA-directed RNA polymerases I, II, and III subunit RPABC2 OS=Mus musculus OX=10...	[more]
O88828	7.0e-22	46.75	DNA-directed RNA polymerases I, II, and III subunit RPABC2 OS=Rattus norvegicus ...	[more]
P61217	9.2e-22	46.75	DNA-directed RNA polymerases I, II, and III subunit RPABC2 OS=Cricetulus griseus...	[more]

BLAST of Clc05G09970 vs. ExPASy TrEMBL


Match Name	E-value	Identity	Description
A0A6J1J2R7	1.5e-62	69.31	DNA-directed RNA polymerases II, IV and V subunit 6A-like OS=Cucurbita maxima OX...	[more]
A0A6J1E614	1.5e-62	69.31	DNA-directed RNA polymerases II, IV and V subunit 6A-like OS=Cucurbita moschata ...	[more]
A0A6J1CI61	1.2e-61	69.31	DNA-directed RNA polymerases II, IV and V subunit 6A OS=Momordica charantia OX=3...	[more]
A0A0A0L8L8	3.6e-61	67.82	Uncharacterized protein OS=Cucumis sativus OX=3659 GN=Csa_3G180370 PE=3 SV=1	[more]
A0A6J1HXF2	4.7e-61	67.82	DNA-directed RNA polymerases II, IV and V subunit 6A-like OS=Cucurbita maxima OX...	[more]

BLAST of Clc05G09970 vs. TAIR 10


Match Name	E-value	Identity	Description
AT5G51940.1	3.5e-53	59.20	RNA polymerase Rpb6	[more]
AT2G04630.1	9.7e-51	58.21	RNA polymerase Rpb6	[more]

InterPro

Analysis Name: InterPro Annotations of Watermelon (cordophanus) v2
Date Performed: 2022-01-31


IPR Term	IPR Description	Source	Source Term	Source Description	Alignment
IPR006110	RNA polymerase, subunit omega/K/RPB6	SMART	SM01409	RNA_pol_Rpb6_2	coord: 78..131 e-value: 4.7E-6 score: 36.1
IPR006110	RNA polymerase, subunit omega/K/RPB6	PFAM	PF01192	RNA_pol_Rpb6	coord: 80..131 e-value: 1.2E-15 score: 57.1
IPR028363	DNA-directed RNA polymerase, subunit RPB6	PIRSF	PIRSF500154	RPB6	coord: 27..144 e-value: 6.7E-45 score: 150.6 coord: 178..193 e-value: 0.17 score: 10.0
IPR012293	RNA polymerase subunit, RPB6/omega	GENE3D	3.90.940.10		coord: 30..148 e-value: 1.5E-42 score: 146.6
IPR006111	Archaeal RpoK/eukaryotic RPB6 RNA polymerase subunit	PIRSF	PIRSF000778	RpoK/RPB6	coord: 27..151 e-value: 2.7E-41 score: 138.8 coord: 177..193 e-value: 63.0 score: 1.6
IPR006111	Archaeal RpoK/eukaryotic RPB6 RNA polymerase subunit	HAMAP	MF_00192	RNApol_arch_K	coord: 82..137 score: 18.504309
None	No IPR available	MOBIDB_LITE	mobidb-lite	disorder_prediction	coord: 37..70
None	No IPR available	MOBIDB_LITE	mobidb-lite	disorder_prediction	coord: 32..79
None	No IPR available	PANTHER	PTHR10773	DNA-DIRECTED RNA POLYMERASES I, II, AND III SUBUNIT RPABC2	coord: 180..201
None	No IPR available	PANTHER	PTHR10773:SF16	DNA-DIRECTED RNA POLYMERASES II AND V SUBUNIT 6B	coord: 180..201
None	No IPR available	PANTHER	PTHR10773	DNA-DIRECTED RNA POLYMERASES I, II, AND III SUBUNIT RPABC2	coord: 32..141
None	No IPR available	PANTHER	PTHR10773:SF16	DNA-DIRECTED RNA POLYMERASES II AND V SUBUNIT 6B	coord: 32..141
IPR020708	DNA-directed RNA polymerase, 14-18kDa subunit, conserved site	PROSITE	PS01111	RNA_POL_K_14KD	coord: 85..99
IPR036161	RPB6/omega subunit-like superfamily	SUPERFAMILY	63562	RPB6/omega subunit-like	coord: 33..142

Relationships

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


Feature Name	Unique Name	Type
Clc05G09970.2	Clc05G09970.2	mRNA

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:0005736	RNA polymerase I complex
cellular_component	GO:0005665	RNA polymerase II, core complex
cellular_component	GO:0005666	RNA polymerase III complex
cellular_component	GO:0005634	nucleus
molecular_function	GO:0003677	DNA binding
molecular_function	GO:0003899	DNA-directed 5'-3' RNA polymerase activity