Lsi05G012560 (gene) Bottle gourd (USVL1VR-Ls) v1

Overview


Name	Lsi05G012560
Type	gene
Organism	Lagenaria siceraria (Bottle gourd (USVL1VR-Ls) v1)
Description	DNA-directed RNA polymerases II, IV and V subunit 6A
Location	chr05: 20328665 .. 20331455 (+)
RNA-Seq Expression	Lsi05G012560
Synteny	Lsi05G012560

Sequences

The following sequences are available for this feature:

Gene sequence (with intron)

Legend: exonCDSpolypeptidethree_prime_UTR

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

ATGATGAAATATCACTTAGGTGTTGGGAAGGAGATGCTATCACGTATCAGAACCAAACTTGATTGTTCGAGCGATTCTGCACAGTTTGATTATGCCTGTGATGAGCAACTTAAAAGAGTTAATTTGGCAAATGTTTGATTTTCTGGCCTTCTTACAGCTCACAATACCAATTTTTAAGGTTTATGCGTGTGCGATAATCTTAGATAGTTGCTTCTGACATATTCTATTAGGGTTTTTCTTTAGGTATGAATTATTGACTTCTTCTGCCTCGAAAGCATGGCTGCTGGAAAAATGTTTTTATTCAAATTTTCAACTTTTTAGTATCTTCAGAATCAGAGATGTTTACGAGCTTATGCTTATTTCTAGATGCTTATGTTGACGAGCGTTATATTTTACTGAACGACTTTATGTTAAGTTGGTTTTGTTTATTGTTGGGAATTACACGTTTTCTTCATTAGTTAAAAGGATCTCTGATAACCTTTATCTTTATAATGGATTACCGTGTCTAAGGATTAAACATTGTGGGTTGAAGGATTGTTTTTTAAAGCTCTCCTGTTAGTAGTTTATTTAATCAGGATAGGCCTCTTGCTGCATAAGTATCATTAGATCTTCATTAGCAACATCCACAAATTACTGAGTATTATCAGTCTTCAAAGTAGGCTTTTATTCACTTTATTCCCTGTTTCTTTTTATTTGCATGAAGGACACATCCCTGCTTCTAGAATACAGTTAGTTCATCAGTTTCTGTATCAGGTTTTTTTTTTGTTAGAAAAAAAATTATCTGTTAATCTAGGTCGTGTTTAGTGTTTTGCATCACATTTTTCACTTTCTTCCTTATTTGGGTTAATAATAAGTTTTGTTAGTTATGCGAAATATGCACAAGGAAAGCAGCAGATAAATGGAGTATAGTGGTAAAAATCTATGTATGGATGAGGACTTGAATCCAACTCTGGGTCTACACATAATGGTTTGCTATTTGAAGAAAATATACTAACATTGCATTCTTAGCTGTAGTTTGACCACACTGGTATAACCTTGTTTTGTAAAAGGCCTTTATATTTTCATTTAGGAATACTGGAAGGTACAGATATTTTTCAGCTCCTATATTAATAAGTGATTGTTGTTGCAGATATGAAGATGAGCCACCAGAACCCGAGATTGAAGTAAGAAATAATTAGTTCGATTCTATTTGAAAGAAAATAGTTAACTTCTCTTTTTGAAGTTGATTAATTGATTATAGTGACACTGAGAATCATGTACAGGAAGGTGCTGAAGAAGAATTGGATAATAATAACAATGATGATGTTCCTGGTGAACCTGTTGAAGCTGAGGAAAAGGAAGATGAAGAACCTGTTGAACGTGTACGTAAAACCTCAAAATTTATGACAAAGTATGAACGTGCTAGGATTTTGGGTACACGTGCCCTCCAAATCAGGTTCCCTTTTTTTACATTTGTCACATCCAAATTTGTACGTGCATCAAGTTGATAAATAGTATGATGGTTTTTTTCCCTTCTCTTGGGCAGCATGAATGCTCCTGTGATGGTCGAGTTGGAGGGTGAGACTGATCCACTTGAGGTTAGATATTTGATTATATTAAGCTAATATCTTTGAAAAGCTCTCTTTTGGTTTTGGCATTCAGCTAGATGTATTTTTGTTGCCTCATATGTGCATCCCATGGTTAGTACACGTGCTCAAAAGAAAAGGGTTAAATTTATATCATACAAAAATGCCCTCAAACTTTGTTGGAGGTTAAATTGAAGGCTTTCAAACAATAGAGTATAATTGAAACTTTGACAATTTGTATGATGATTATTTATGGTTTCAATCAACCCATGTTGAACCCACAGAAACACCTGCCATTCATGGGTTTGTAATAGATCATGCTTTTCTAGGGAATGAGCATATATGCTTGCCCATCTGGGTGCTTGGCATTTTTTTGGTTGGCTCTGGCATTGTTTTCTGGCATCTTGTCTAATCCTGTACTGCCTTAGATTGCGATGAAGGAGCTTCGTGAGCGGAAGATACCCTTCACCATCCGACGCTACCTGCCAGATGGAAGGTTAGGCCACTTAGATCTAATTCATTTGTCTTTAACATTCAGATTCACCTGCCGACAGGGGTGTGCAGAAAACTGAAAACAAACGAACCAGTTGGTTTGGTTCTTTATGAGCGTGTATAAGTTTAGAGAGACCAACTGTTGGTCTTAAGTATTGAACTAGTCTTAGAGAAAAATAATTAGTCTGAGGTTTTGGATCTCAAATTTTTCCAAAACTAAACCAAAATCAAAGATTCTTTCTAGTTCTCTGTAGGACTAAATTAGTGAAACTGTGTGTGTTAATTTTGGGCAGTTATGAAGACTGGGGCGTTGATGAACTGATTGTGGAGGACTCTTGGAAGAGGCAAGTTGGCGGCGCTTGATTGATCTGTGTGGGTGTTGTCACCATATGTGAGATAATAGATTTCAACTGCATAGCGATTGGCGAATCAGTTCCCATTTGAAAAGGAGAACACGACTACTAATGTTTTGTTGCATAACTCTATTTTCTATAATATATTGGAAAGGAACCTCTGTTATTGTATTGCCTACCATTATTTTTATTACTATAAACCATGCCATAACACTTTACTTTCAATCTTCAATTGTGCTCTTCCACACACGTTGAAAATTGCTTTTCTTGGCCAACACTAGCTTGCCTATGTGCATTCCAAACCATTAGGAAAGGTACGGATAAAAAATGCTTCAAAGAGCATGACATGGAAGTAATTTGACATAATGAATTCAATAAAAA

mRNA sequence

ATGATGAAATATCACTTAGGTGTTGGGAAGGAGATGCTATCACGTATCAGAACCAAACTTGATTGTTCGAGCGATTCTGCACAATATGAAGATGAGCCACCAGAACCCGAGATTGAAGAAGGTGCTGAAGAAGAATTGGATAATAATAACAATGATGATGTTCCTGGTGAACCTGTTGAAGCTGAGGAAAAGGAAGATGAAGAACCTGTTGAACGTGTACGTAAAACCTCAAAATTTATGACAAAGTATGAACGTGCTAGGATTTTGGGTACACGTGCCCTCCAAATCAGCATGAATGCTCCTGTGATGGTCGAGTTGGAGGGTGAGACTGATCCACTTGAGATTGCGATGAAGGAGCTTCGTGAGCGGAAGATACCCTTCACCATCCGACGCTACCTGCCAGATGGAAGTTATGAAGACTGGGGCGTTGATGAACTGATTGTGGAGGACTCTTGGAAGAGGCAAGTTGGCGGCGCTTGATTGATCTGTGTGGGTGTTGTCACCATATGTGAGATAATAGATTTCAACTGCATAGCGATTGGCGAATCAGTTCCCATTTGAAAAGGAGAACACGACTACTAATGTTTTGTTGCATAACTCTATTTTCTATAATATATTGGAAAGGAACCTCTGTTATTGTATTGCCTACCATTATTTTTATTACTATAAACCATGCCATAACACTTTACTTTCAATCTTCAATTGTGCTCTTCCACACACGTTGAAAATTGCTTTTCTTGGCCAACACTAGCTTGCCTATGTGCATTCCAAACCATTAGGAAAGGTACGGATAAAAAATGCTTCAAAGAGCATGACATGGAAGTAATTTGACATAATGAATTCAATAAAAA

Coding sequence (CDS)

ATGATGAAATATCACTTAGGTGTTGGGAAGGAGATGCTATCACGTATCAGAACCAAACTTGATTGTTCGAGCGATTCTGCACAATATGAAGATGAGCCACCAGAACCCGAGATTGAAGAAGGTGCTGAAGAAGAATTGGATAATAATAACAATGATGATGTTCCTGGTGAACCTGTTGAAGCTGAGGAAAAGGAAGATGAAGAACCTGTTGAACGTGTACGTAAAACCTCAAAATTTATGACAAAGTATGAACGTGCTAGGATTTTGGGTACACGTGCCCTCCAAATCAGCATGAATGCTCCTGTGATGGTCGAGTTGGAGGGTGAGACTGATCCACTTGAGATTGCGATGAAGGAGCTTCGTGAGCGGAAGATACCCTTCACCATCCGACGCTACCTGCCAGATGGAAGTTATGAAGACTGGGGCGTTGATGAACTGATTGTGGAGGACTCTTGGAAGAGGCAAGTTGGCGGCGCTTGA

Protein sequence

MMKYHLGVGKEMLSRIRTKLDCSSDSAQYEDEPPEPEIEEGAEEELDNNNNDDVPGEPVEAEEKEDEEPVERVRKTSKFMTKYERARILGTRALQISMNAPVMVELEGETDPLEIAMKELRERKIPFTIRRYLPDGSYEDWGVDELIVEDSWKRQVGGA

Homology

[Close]

BLAST of Lsi05G012560 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: 220.3 bits (560), Expect = 1.5e-56
Identity = 112/134 (83.58%), Postives = 122/134 (91.04%), Query Frame = 0


Query: 25  DSAQYEDEPPEPEIEEGAEEELDNNNNDDVPGEPVEAEEKEDEEPVERVRKTSKFMTKYE 84
           D   YEDEP EPEIEEG EE+++   NDDV GEP+EAE+K + EPV+R RKTSKFMTKYE
Sbjct: 10  DDLGYEDEPAEPEIEEGVEEDVEMKENDDVNGEPIEAEDKVETEPVQRPRKTSKFMTKYE 69

Query: 85  RARILGTRALQISMNAPVMVELEGETDPLEIAMKELRERKIPFTIRRYLPDGSYEDWGVD 144
           RARILGTRALQISMNAPVMVELEGETDPLEIAMKELR+RKIPFTIRRYLPDGS+E+WGVD
Sbjct: 70  RARILGTRALQISMNAPVMVELEGETDPLEIAMKELRQRKIPFTIRRYLPDGSFEEWGVD 129

Query: 145 ELIVEDSWKRQVGG 159
           ELIVEDSWKRQVGG
Sbjct: 130 ELIVEDSWKRQVGG 143

[Close]

BLAST of Lsi05G012560 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: 211.8 bits (538), Expect = 5.5e-54
Identity = 110/134 (82.09%), Postives = 118/134 (88.06%), Query Frame = 0


Query: 25  DSAQYEDEPPEPEIEEGAEEELDNNNNDDVPGEPVEAEEKEDEEPVERVRKTSKFMTKYE 84
           D   YEDEP EPEIEEG EE+ D   NDDV  +P+E E+K + EPV+R RKTSKFMTKYE
Sbjct: 10  DDLGYEDEPAEPEIEEGVEEDADIKENDDVNVDPLETEDKVETEPVQRPRKTSKFMTKYE 69

Query: 85  RARILGTRALQISMNAPVMVELEGETDPLEIAMKELRERKIPFTIRRYLPDGSYEDWGVD 144
           RARILGTRALQISMNAPVMVELEGETDPLEIAMKELR+RKIPFTIRRYLPD SYE+WGVD
Sbjct: 70  RARILGTRALQISMNAPVMVELEGETDPLEIAMKELRQRKIPFTIRRYLPDMSYEEWGVD 129

Query: 145 ELIVEDSWKRQVGG 159
           ELIVEDSWKRQVGG
Sbjct: 130 ELIVEDSWKRQVGG 143

[Close]

BLAST of Lsi05G012560 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: 124.4 bits (311), Expect = 1.2e-27
Identity = 76/128 (59.38%), Postives = 90/128 (70.31%), Query Frame = 0


Query: 24  SDSAQYEDEPPEPEIEEGAEEELDNNNNDDVPG-EPVEAEEKEDEEPVERVRKTSKFMTK 83
           SD+    D     ++EE  +E LD+  N +  G E VE     +     + R T+ +MTK
Sbjct: 2   SDNEDNFDGDDFDDVEE--DEGLDDLENAEEEGQENVEILPSGERPQANQKRITTPYMTK 61

Query: 84  YERARILGTRALQISMNAPVMVELEGETDPLEIAMKELRERKIPFTIRRYLPDGSYEDWG 143
           YERAR+LGTRALQI+M APVMVELEGETDPL IAMKEL+ RKIP  IRRYLPDGSYEDWG
Sbjct: 62  YERARVLGTRALQIAMCAPVMVELEGETDPLLIAMKELKARKIPIIIRRYLPDGSYEDWG 121

Query: 144 VDELIVED 151
           VDELI+ D
Sbjct: 122 VDELIISD 127

[Close]

BLAST of Lsi05G012560 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: 124.4 bits (311), Expect = 1.2e-27
Identity = 76/128 (59.38%), Postives = 90/128 (70.31%), Query Frame = 0


Query: 24  SDSAQYEDEPPEPEIEEGAEEELDNNNNDDVPG-EPVEAEEKEDEEPVERVRKTSKFMTK 83
           SD+    D     ++EE  +E LD+  N +  G E VE     +     + R T+ +MTK
Sbjct: 2   SDNEDNFDGDDFDDVEE--DEGLDDLENAEEEGQENVEILPSGERPQANQKRITTPYMTK 61

Query: 84  YERARILGTRALQISMNAPVMVELEGETDPLEIAMKELRERKIPFTIRRYLPDGSYEDWG 143
           YERAR+LGTRALQI+M APVMVELEGETDPL IAMKEL+ RKIP  IRRYLPDGSYEDWG
Sbjct: 62  YERARVLGTRALQIAMCAPVMVELEGETDPLLIAMKELKARKIPIIIRRYLPDGSYEDWG 121

Query: 144 VDELIVED 151
           VDELI+ D
Sbjct: 122 VDELIISD 127

[Close]

BLAST of Lsi05G012560 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: 124.0 bits (310), Expect = 1.5e-27
Identity = 76/128 (59.38%), Postives = 90/128 (70.31%), Query Frame = 0


Query: 24  SDSAQYEDEPPEPEIEEGAEEELDNNNNDDVPG-EPVEAEEKEDEEPVERVRKTSKFMTK 83
           SD+    D     ++EE  +E LD+  N +  G E VE     +     + R T+ +MTK
Sbjct: 2   SDNEDNFDGDDFDDVEE--DEGLDDLENAEEEGQENVEILPSGERPQANQKRITTPYMTK 61

Query: 84  YERARILGTRALQISMNAPVMVELEGETDPLEIAMKELRERKIPFTIRRYLPDGSYEDWG 143
           YERAR+LGTRALQI+M APVMVELEGETDPL IAMKEL+ RKIP  IRRYLPDGSYEDWG
Sbjct: 62  YERARVLGTRALQIAMCAPVMVELEGETDPLLIAMKELKARKIPIIIRRYLPDGSYEDWG 121

Query: 144 VDELIVED 151
           VDELI+ D
Sbjct: 122 VDELIITD 127

[Close]

BLAST of Lsi05G012560 vs. ExPASy TrEMBL
Match: A0A5A7SSQ6 (DNA-directed RNA polymerases II, IV and V subunit 6A OS=Cucumis melo var. makuwa OX=1194695 GN=E6C27_scaffold239G00540 PE=3 SV=1)

HSP 1 Score: 255.8 bits (652), Expect = 1.2e-64
Identity = 130/138 (94.20%), Postives = 132/138 (95.65%), Query Frame = 0


Query: 22  CSSDSAQYEDEPPEPEIEEGAEEELDNNNNDDVPGEPVEAEEKEDEEPVERVRKTSKFMT 81
           C + S QYEDEPPEPEIEEGAEEELDN NNDD+ GEPVEAEEKEDEEPVER RKTSKFMT
Sbjct: 11  CPTSSIQYEDEPPEPEIEEGAEEELDNTNNDDITGEPVEAEEKEDEEPVERARKTSKFMT 70

Query: 82  KYERARILGTRALQISMNAPVMVELEGETDPLEIAMKELRERKIPFTIRRYLPDGSYEDW 141
           KYERARILGTRALQISMNAPVMVELEGETDPLEIAMKELRERKIPFTIRRYLPDGSYEDW
Sbjct: 71  KYERARILGTRALQISMNAPVMVELEGETDPLEIAMKELRERKIPFTIRRYLPDGSYEDW 130

Query: 142 GVDELIVEDSWKRQVGGA 160
           GVDELIVEDSWKRQVGGA
Sbjct: 131 GVDELIVEDSWKRQVGGA 148

[Close]

BLAST of Lsi05G012560 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: 255.0 bits (650), Expect = 2.1e-64
Identity = 129/131 (98.47%), Postives = 131/131 (100.00%), Query Frame = 0


Query: 29  YEDEPPEPEIEEGAEEELDNNNNDDVPGEPVEAEEKEDEEPVERVRKTSKFMTKYERARI 88
           Y+DEPPEPE+EEGAEEELDNNNNDDVPGEPVEAEEKEDEEPVERVRKTSKFMTKYERARI
Sbjct: 13  YDDEPPEPELEEGAEEELDNNNNDDVPGEPVEAEEKEDEEPVERVRKTSKFMTKYERARI 72

Query: 89  LGTRALQISMNAPVMVELEGETDPLEIAMKELRERKIPFTIRRYLPDGSYEDWGVDELIV 148
           LGTRALQISMNAPVMVELEGETDPLEIAMKELRERKIPFTIRRYLPDGSYEDWGVDELIV
Sbjct: 73  LGTRALQISMNAPVMVELEGETDPLEIAMKELRERKIPFTIRRYLPDGSYEDWGVDELIV 132

Query: 149 EDSWKRQVGGA 160
           EDSWKRQVGGA
Sbjct: 133 EDSWKRQVGGA 143

[Close]

BLAST of Lsi05G012560 vs. ExPASy TrEMBL
Match: A0A5D3DFB9 (DNA-directed RNA polymerases II, IV and V subunit 6A OS=Cucumis melo var. makuwa OX=1194695 GN=E5676_scaffold440G00400 PE=3 SV=1)

HSP 1 Score: 255.0 bits (650), Expect = 2.1e-64
Identity = 130/138 (94.20%), Postives = 132/138 (95.65%), Query Frame = 0


Query: 22  CSSDSAQYEDEPPEPEIEEGAEEELDNNNNDDVPGEPVEAEEKEDEEPVERVRKTSKFMT 81
           C + S QYEDEPPEPEIEEGAEEELDN NNDD+ GEPVEAEEKEDEEPVER RKTSKFMT
Sbjct: 11  CPTSSIQYEDEPPEPEIEEGAEEELDNTNNDDITGEPVEAEEKEDEEPVERPRKTSKFMT 70

Query: 82  KYERARILGTRALQISMNAPVMVELEGETDPLEIAMKELRERKIPFTIRRYLPDGSYEDW 141
           KYERARILGTRALQISMNAPVMVELEGETDPLEIAMKELRERKIPFTIRRYLPDGSYEDW
Sbjct: 71  KYERARILGTRALQISMNAPVMVELEGETDPLEIAMKELRERKIPFTIRRYLPDGSYEDW 130

Query: 142 GVDELIVEDSWKRQVGGA 160
           GVDELIVEDSWKRQVGGA
Sbjct: 131 GVDELIVEDSWKRQVGGA 148

[Close]

BLAST of Lsi05G012560 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: 255.0 bits (650), Expect = 2.1e-64
Identity = 129/131 (98.47%), Postives = 131/131 (100.00%), Query Frame = 0


Query: 29  YEDEPPEPEIEEGAEEELDNNNNDDVPGEPVEAEEKEDEEPVERVRKTSKFMTKYERARI 88
           Y+DEPPEPE+EEGAEEELDNNNNDDVPGEPVEAEEKEDEEPVERVRKTSKFMTKYERARI
Sbjct: 13  YDDEPPEPELEEGAEEELDNNNNDDVPGEPVEAEEKEDEEPVERVRKTSKFMTKYERARI 72

Query: 89  LGTRALQISMNAPVMVELEGETDPLEIAMKELRERKIPFTIRRYLPDGSYEDWGVDELIV 148
           LGTRALQISMNAPVMVELEGETDPLEIAMKELRERKIPFTIRRYLPDGSYEDWGVDELIV
Sbjct: 73  LGTRALQISMNAPVMVELEGETDPLEIAMKELRERKIPFTIRRYLPDGSYEDWGVDELIV 132

Query: 149 EDSWKRQVGGA 160
           EDSWKRQVGGA
Sbjct: 133 EDSWKRQVGGA 143

[Close]

BLAST of Lsi05G012560 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: 251.9 bits (642), Expect = 1.8e-63
Identity = 129/131 (98.47%), Postives = 130/131 (99.24%), Query Frame = 0


Query: 29  YEDEPPEPEIEEGAEEELDNNNNDDVPGEPVEAEEKEDEEPVERVRKTSKFMTKYERARI 88
           YEDEPPEPE+EEGAEEELDNNNNDDV GEPVEAEEKEDEEPVERVRKTSKFMTKYERARI
Sbjct: 13  YEDEPPEPEMEEGAEEELDNNNNDDVLGEPVEAEEKEDEEPVERVRKTSKFMTKYERARI 72

Query: 89  LGTRALQISMNAPVMVELEGETDPLEIAMKELRERKIPFTIRRYLPDGSYEDWGVDELIV 148
           LGTRALQISMNAPVMVELEGETDPLEIAMKELRERKIPFTIRRYLPDGSYEDWGVDELIV
Sbjct: 73  LGTRALQISMNAPVMVELEGETDPLEIAMKELRERKIPFTIRRYLPDGSYEDWGVDELIV 132

Query: 149 EDSWKRQVGGA 160
           EDSWKRQVGGA
Sbjct: 133 EDSWKRQVGGA 143

[Close]

BLAST of Lsi05G012560 vs. NCBI nr
Match: KAA0033618.1 (DNA-directed RNA polymerases II, IV and V subunit 6A [Cucumis melo var. makuwa])

HSP 1 Score: 255.8 bits (652), Expect = 2.5e-64
Identity = 130/138 (94.20%), Postives = 132/138 (95.65%), Query Frame = 0


Query: 22  CSSDSAQYEDEPPEPEIEEGAEEELDNNNNDDVPGEPVEAEEKEDEEPVERVRKTSKFMT 81
           C + S QYEDEPPEPEIEEGAEEELDN NNDD+ GEPVEAEEKEDEEPVER RKTSKFMT
Sbjct: 11  CPTSSIQYEDEPPEPEIEEGAEEELDNTNNDDITGEPVEAEEKEDEEPVERARKTSKFMT 70

Query: 82  KYERARILGTRALQISMNAPVMVELEGETDPLEIAMKELRERKIPFTIRRYLPDGSYEDW 141
           KYERARILGTRALQISMNAPVMVELEGETDPLEIAMKELRERKIPFTIRRYLPDGSYEDW
Sbjct: 71  KYERARILGTRALQISMNAPVMVELEGETDPLEIAMKELRERKIPFTIRRYLPDGSYEDW 130

Query: 142 GVDELIVEDSWKRQVGGA 160
           GVDELIVEDSWKRQVGGA
Sbjct: 131 GVDELIVEDSWKRQVGGA 148

[Close]

BLAST of Lsi05G012560 vs. NCBI nr
Match: TYK22284.1 (DNA-directed RNA polymerases II, IV and V subunit 6A [Cucumis melo var. makuwa])

HSP 1 Score: 255.0 bits (650), Expect = 4.3e-64
Identity = 130/138 (94.20%), Postives = 132/138 (95.65%), Query Frame = 0


Query: 22  CSSDSAQYEDEPPEPEIEEGAEEELDNNNNDDVPGEPVEAEEKEDEEPVERVRKTSKFMT 81
           C + S QYEDEPPEPEIEEGAEEELDN NNDD+ GEPVEAEEKEDEEPVER RKTSKFMT
Sbjct: 11  CPTSSIQYEDEPPEPEIEEGAEEELDNTNNDDITGEPVEAEEKEDEEPVERPRKTSKFMT 70

Query: 82  KYERARILGTRALQISMNAPVMVELEGETDPLEIAMKELRERKIPFTIRRYLPDGSYEDW 141
           KYERARILGTRALQISMNAPVMVELEGETDPLEIAMKELRERKIPFTIRRYLPDGSYEDW
Sbjct: 71  KYERARILGTRALQISMNAPVMVELEGETDPLEIAMKELRERKIPFTIRRYLPDGSYEDW 130

Query: 142 GVDELIVEDSWKRQVGGA 160
           GVDELIVEDSWKRQVGGA
Sbjct: 131 GVDELIVEDSWKRQVGGA 148

[Close]

BLAST of Lsi05G012560 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: 255.0 bits (650), Expect = 4.3e-64
Identity = 129/131 (98.47%), Postives = 131/131 (100.00%), Query Frame = 0


Query: 29  YEDEPPEPEIEEGAEEELDNNNNDDVPGEPVEAEEKEDEEPVERVRKTSKFMTKYERARI 88
           Y+DEPPEPE+EEGAEEELDNNNNDDVPGEPVEAEEKEDEEPVERVRKTSKFMTKYERARI
Sbjct: 13  YDDEPPEPELEEGAEEELDNNNNDDVPGEPVEAEEKEDEEPVERVRKTSKFMTKYERARI 72

Query: 89  LGTRALQISMNAPVMVELEGETDPLEIAMKELRERKIPFTIRRYLPDGSYEDWGVDELIV 148
           LGTRALQISMNAPVMVELEGETDPLEIAMKELRERKIPFTIRRYLPDGSYEDWGVDELIV
Sbjct: 73  LGTRALQISMNAPVMVELEGETDPLEIAMKELRERKIPFTIRRYLPDGSYEDWGVDELIV 132

Query: 149 EDSWKRQVGGA 160
           EDSWKRQVGGA
Sbjct: 133 EDSWKRQVGGA 143

[Close]

BLAST of Lsi05G012560 vs. NCBI nr
Match: KAG6574158.1 (DNA-directed RNA polymerases II, IV and V subunit 6A, partial [Cucurbita argyrosperma subsp. sororia])

HSP 1 Score: 251.9 bits (642), Expect = 3.6e-63
Identity = 130/148 (87.84%), Postives = 136/148 (91.89%), Query Frame = 0


Query: 12  MLSRIRTKLDCSSDSAQYEDEPPEPEIEEGAEEELDNNNNDDVPGEPVEAEEKEDEEPVE 71
           M   + T +  S    +YEDEPPEPE+EEGAEEELDNNN DDVPGEPVEAE+KEDEEP+E
Sbjct: 1   MYKYLSTLILISVFCCRYEDEPPEPEMEEGAEEELDNNNADDVPGEPVEAEDKEDEEPIE 60

Query: 72  RVRKTSKFMTKYERARILGTRALQISMNAPVMVELEGETDPLEIAMKELRERKIPFTIRR 131
           RVRKTSKFMTKYERARILGTRALQISMNAPVMVELEGETDPLEIAMKELRERKIPFTIRR
Sbjct: 61  RVRKTSKFMTKYERARILGTRALQISMNAPVMVELEGETDPLEIAMKELRERKIPFTIRR 120

Query: 132 YLPDGSYEDWGVDELIVEDSWKRQVGGA 160
           YLPDGSYEDWGVDELIVEDSWKRQVGGA
Sbjct: 121 YLPDGSYEDWGVDELIVEDSWKRQVGGA 148

[Close]

BLAST of Lsi05G012560 vs. NCBI nr
Match: XP_022141284.1 (DNA-directed RNA polymerases II, IV and V subunit 6A [Momordica charantia])

HSP 1 Score: 251.9 bits (642), Expect = 3.6e-63
Identity = 129/131 (98.47%), Postives = 130/131 (99.24%), Query Frame = 0


Query: 29  YEDEPPEPEIEEGAEEELDNNNNDDVPGEPVEAEEKEDEEPVERVRKTSKFMTKYERARI 88
           YEDEPPEPE+EEGAEEELDNNNNDDV GEPVEAEEKEDEEPVERVRKTSKFMTKYERARI
Sbjct: 13  YEDEPPEPEMEEGAEEELDNNNNDDVLGEPVEAEEKEDEEPVERVRKTSKFMTKYERARI 72

Query: 89  LGTRALQISMNAPVMVELEGETDPLEIAMKELRERKIPFTIRRYLPDGSYEDWGVDELIV 148
           LGTRALQISMNAPVMVELEGETDPLEIAMKELRERKIPFTIRRYLPDGSYEDWGVDELIV
Sbjct: 73  LGTRALQISMNAPVMVELEGETDPLEIAMKELRERKIPFTIRRYLPDGSYEDWGVDELIV 132

Query: 149 EDSWKRQVGGA 160
           EDSWKRQVGGA
Sbjct: 133 EDSWKRQVGGA 143

[Close]

BLAST of Lsi05G012560 vs. TAIR 10
Match: AT5G51940.1 (RNA polymerase Rpb6 )

HSP 1 Score: 220.3 bits (560), Expect = 1.1e-57
Identity = 112/134 (83.58%), Postives = 122/134 (91.04%), Query Frame = 0


Query: 25  DSAQYEDEPPEPEIEEGAEEELDNNNNDDVPGEPVEAEEKEDEEPVERVRKTSKFMTKYE 84
           D   YEDEP EPEIEEG EE+++   NDDV GEP+EAE+K + EPV+R RKTSKFMTKYE
Sbjct: 10  DDLGYEDEPAEPEIEEGVEEDVEMKENDDVNGEPIEAEDKVETEPVQRPRKTSKFMTKYE 69

Query: 85  RARILGTRALQISMNAPVMVELEGETDPLEIAMKELRERKIPFTIRRYLPDGSYEDWGVD 144
           RARILGTRALQISMNAPVMVELEGETDPLEIAMKELR+RKIPFTIRRYLPDGS+E+WGVD
Sbjct: 70  RARILGTRALQISMNAPVMVELEGETDPLEIAMKELRQRKIPFTIRRYLPDGSFEEWGVD 129

Query: 145 ELIVEDSWKRQVGG 159
           ELIVEDSWKRQVGG
Sbjct: 130 ELIVEDSWKRQVGG 143

[Close]

BLAST of Lsi05G012560 vs. TAIR 10
Match: AT2G04630.1 (RNA polymerase Rpb6 )

HSP 1 Score: 211.8 bits (538), Expect = 3.9e-55
Identity = 110/134 (82.09%), Postives = 118/134 (88.06%), Query Frame = 0


Query: 25  DSAQYEDEPPEPEIEEGAEEELDNNNNDDVPGEPVEAEEKEDEEPVERVRKTSKFMTKYE 84
           D   YEDEP EPEIEEG EE+ D   NDDV  +P+E E+K + EPV+R RKTSKFMTKYE
Sbjct: 10  DDLGYEDEPAEPEIEEGVEEDADIKENDDVNVDPLETEDKVETEPVQRPRKTSKFMTKYE 69

Query: 85  RARILGTRALQISMNAPVMVELEGETDPLEIAMKELRERKIPFTIRRYLPDGSYEDWGVD 144
           RARILGTRALQISMNAPVMVELEGETDPLEIAMKELR+RKIPFTIRRYLPD SYE+WGVD
Sbjct: 70  RARILGTRALQISMNAPVMVELEGETDPLEIAMKELRQRKIPFTIRRYLPDMSYEEWGVD 129

Query: 145 ELIVEDSWKRQVGG 159
           ELIVEDSWKRQVGG
Sbjct: 130 ELIVEDSWKRQVGG 143

The following BLAST results are available for this feature:

BLAST of Lsi05G012560 vs. ExPASy Swiss-Prot


Match Name	E-value	Identity	Description
Q9FJ98	1.5e-56	83.58	DNA-directed RNA polymerases II, IV and V subunit 6A OS=Arabidopsis thaliana OX=...	[more]
Q9SJ96	5.5e-54	82.09	DNA-directed RNA polymerases II and V subunit 6B OS=Arabidopsis thaliana OX=3702...	[more]
P61219	1.2e-27	59.38	DNA-directed RNA polymerases I, II, and III subunit RPABC2 OS=Mus musculus OX=10...	[more]
O88828	1.2e-27	59.38	DNA-directed RNA polymerases I, II, and III subunit RPABC2 OS=Rattus norvegicus ...	[more]
P61217	1.5e-27	59.38	DNA-directed RNA polymerases I, II, and III subunit RPABC2 OS=Cricetulus griseus...	[more]

BLAST of Lsi05G012560 vs. ExPASy TrEMBL


Match Name	E-value	Identity	Description
A0A5A7SSQ6	1.2e-64	94.20	DNA-directed RNA polymerases II, IV and V subunit 6A OS=Cucumis melo var. makuwa...	[more]
A0A6J1J2R7	2.1e-64	98.47	DNA-directed RNA polymerases II, IV and V subunit 6A-like OS=Cucurbita maxima OX...	[more]
A0A5D3DFB9	2.1e-64	94.20	DNA-directed RNA polymerases II, IV and V subunit 6A OS=Cucumis melo var. makuwa...	[more]
A0A6J1E614	2.1e-64	98.47	DNA-directed RNA polymerases II, IV and V subunit 6A-like OS=Cucurbita moschata ...	[more]
A0A6J1CI61	1.8e-63	98.47	DNA-directed RNA polymerases II, IV and V subunit 6A OS=Momordica charantia OX=3...	[more]

BLAST of Lsi05G012560 vs. NCBI nr


Match Name	E-value	Identity	Description
KAA0033618.1	2.5e-64	94.20	DNA-directed RNA polymerases II, IV and V subunit 6A [Cucumis melo var. makuwa]	[more]
TYK22284.1	4.3e-64	94.20	DNA-directed RNA polymerases II, IV and V subunit 6A [Cucumis melo var. makuwa]	[more]
XP_022923151.1	4.3e-64	98.47	DNA-directed RNA polymerases II, IV and V subunit 6A-like [Cucurbita moschata] >...	[more]
KAG6574158.1	3.6e-63	87.84	DNA-directed RNA polymerases II, IV and V subunit 6A, partial [Cucurbita argyros...	[more]
XP_022141284.1	3.6e-63	98.47	DNA-directed RNA polymerases II, IV and V subunit 6A [Momordica charantia]	[more]

BLAST of Lsi05G012560 vs. TAIR 10


Match Name	E-value	Identity	Description
AT5G51940.1	1.1e-57	83.58	RNA polymerase Rpb6	[more]
AT2G04630.1	3.9e-55	82.09	RNA polymerase Rpb6	[more]

InterPro

Analysis Name: InterPro Annotations of Bottle gourd (USVL1VR-Ls) v1
Date Performed: 2021-10-18


IPR Term	IPR Description	Source	Source Term	Source Description	Alignment
IPR006110	RNA polymerase, subunit omega/K/RPB6	SMART	SM01409	RNA_pol_Rpb6_2	coord: 74..127 e-value: 4.7E-6 score: 36.1
IPR006110	RNA polymerase, subunit omega/K/RPB6	PFAM	PF01192	RNA_pol_Rpb6	coord: 76..127 e-value: 7.5E-16 score: 57.7
IPR012293	RNA polymerase subunit, RPB6/omega	GENE3D	3.90.940.10		coord: 22..150 e-value: 5.8E-51 score: 173.8
IPR006111	Archaeal RpoK/eukaryotic RPB6 RNA polymerase subunit	PIRSF	PIRSF000778	RpoK/RPB6	coord: 17..150 e-value: 7.0E-48 score: 160.1
IPR006111	Archaeal RpoK/eukaryotic RPB6 RNA polymerase subunit	HAMAP	MF_00192	RNApol_arch_K	coord: 78..133 score: 18.504309
IPR028363	DNA-directed RNA polymerase, subunit RPB6	PIRSF	PIRSF500154	RPB6	coord: 16..150 e-value: 5.3E-55 score: 183.4
None	No IPR available	MOBIDB_LITE	mobidb-lite	disorder_prediction	coord: 28..66
None	No IPR available	MOBIDB_LITE	mobidb-lite	disorder_prediction	coord: 19..76
None	No IPR available	PANTHER	PTHR10773	DNA-DIRECTED RNA POLYMERASES I, II, AND III SUBUNIT RPABC2	coord: 25..158
None	No IPR available	PANTHER	PTHR10773:SF16	DNA-DIRECTED RNA POLYMERASES II AND V SUBUNIT 6B	coord: 25..158
IPR020708	DNA-directed RNA polymerase, 14-18kDa subunit, conserved site	PROSITE	PS01111	RNA_POL_K_14KD	coord: 81..95
IPR036161	RPB6/omega subunit-like superfamily	SUPERFAMILY	63562	RPB6/omega subunit-like	coord: 32..149

Relationships

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


Feature Name	Unique Name	Type
Lsi05G012560.1	Lsi05G012560.1	mRNA

GO Annotation

GO Assignments

This gene is annotated with the following GO terms.

Category	Term Accession	Term Name
biological_process	GO:0015031	protein transport
biological_process	GO:0006351	transcription, DNA-templated
cellular_component	GO:0005768	endosome
cellular_component	GO:0016020	membrane
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
molecular_function	GO:0035091	phosphatidylinositol binding