Carg23740 (gene) Silver-seed gourd | Cucurbit Genomics Database (CuGenDB)

Overview


Name	Carg23740
Type	gene
Organism	Cucurbita argyrosperma (Silver-seed gourd)
Description	DNA-directed RNA polymerase subunit
Location	Cucurbita_argyrosperma_scaffold_213 : 304473 .. 307158 (-)

Genome Viewer

Gene Expression

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.

CCCGCCAATGGAAGAAAACTTCTCTTTCGCCTGATCGACGTTTCTAGAACCGCAGCCGATTACGGATAGATGCGTTGGCTGAGCATTCCAGTTATTCCACTCCTCAAATTCGTTCTTTCTGTTGAGTATAGCGTTTGATTTTTGCGCAGATTCCTTCTGATTTTCAGCTGAACAGCTGCTAAAACCCTAGCTGAAAGTTGATCTGTATTAGTTCAGGGTTTCTTGTTTTTCTATCTTCTGCAAGATGAGTACCATGAAGTTTTGCCGGGAATGGTATGTGTTAGGGTTTAATGTCGCATATGGCTCTTGTTCTACTGTGTTGATTAGTTTAAGTTGTTGAAAAATGTTGAGAATATGGAAATTCTTATGTTGCAGTAACAACATTCTCTATCCGAAGGAGGATAGGGATGAGAAGATTCTTCTCTATGCGTGTCGCAACTGTGATCACCAGGTAACCTTCTCCTTCTTTTCATTTCATCTTTCTATTGTAACTTTGTGAACGTTTTAGGTTTATTAGTTAGGCTTTCATTTCTAATGTAATAGTTTACGACTTACGAGTACGGTCTTCTCACTATATATTTGTCGGGTCTGGTGAAACCTTTTGCTATCGTTTTCTTTCTGTAGTTGAAATCAAATATCATTCTGCTTCTGGATGTGACTTGCCTTGCTTTATAGTAATTTTACCCTAGGACAACGATATTTGGTCCTGATTCGTGATTATGCCTTCAGATACTCAAGGTTGTCACTTTCACTCGTCACCCTGTTAAATGTTCCTGTCGTCTTATCATCTCTATTGTTAGCTTACCCTTCTCTGAATTTGAAGGACATACTATCCCATTGTTCTTGGTTGCTTGTGTAGTTCATTTCGGTATAATAGTTTTCAGGAAGGAAAAATTTAAGAAGATTATGATTTAACTAATTCTTATCTTTTGATAGCATGCTAACGGGTCCCTTACAGTTCTTAGTGGGAGATATGCATGTCCATCAGTATGAATATACATCTAGACAAATGCTAGAAACAGCTACTCGTTTCATTTAATCTAGGTGAGGGAATATAACATTTGTGCTGACGGTTAATTCAGCCTTTATAAAATTATTAGGATGGTATTACTAATTTAATTTTGAACGATGCAAGTTTGGGCCATTTTTTCATTGATATTAGTGTTAACTCACTCCCTTAGGTCGTGGAATTGTTGAAGTTAATCTTCACGAGTGGCTTTTGATTTCCCTTTTGAATTTATGTGTTCTGAAATTCTTTACAAATTGAATTGCATATTTTCTTTACCTCTAGTTAATGTATGTTTTCCTGATGGATCATTGATGAAAACTTCCTTTCTATTTTCTTGTAGCCGAGTAGCTTTTATTTTTGCCTACTGGAAGATAGACCTGTATCTGTACACTGAGATCAATATCCTCCCTTCTTTTCTTCTGATTTGACTTACTGATACTCCCCCTTCTGTGTATTGACATGTTTTAATTTCTAGGAATTGAGGGTTTCCTTCCCCCTTATTCTGACCATTAATTCTCATGTTTTGTTTTAAATTTCTGTTTGCAGGAAGTTGCTGACAATAACTGTGTCTATAGGAATGAGATTCATCACGCCGTAGGGGAACGCACTCAAGTTCTGCAAGATGTTGCTGCGGATCCAACACTCCCTCGCACAAAAGCTGTTCGATGTGCTCAATGCAACCATGGAGAAGCTGTTTTCTTCCAGGTTCACTTCCTTTTTGTTTTGCAGCTCTGGTTTGCTAGTCTTGAGCTTTCTTCTTCCCTCTCTTGATTTCATCAGTGTTAGAATTTCCAACCCAAGCTTCATTCATTCTTAACTCCCAAAAGTTGTAGTTTGTTCTAAATTACATGCTACATCATTATCTTTATTGGGCTGTGAATACCGCCGGTAAGGTTTTCTTGAATGAGTTTTGTTTTGTTGAATTTTAGTAGGCTGCTAGAGGTTACCAATTTTGAATTTTGATTTGCATCATTTCATCATGTTCATGCTTATATCTAGCCATGATCTCATTACATAATTGTATGCAGGCCACTGCCAGAGGGGAGGAAGGTATGACATTATTCTTCGTTTGCTGCAATCCAAATTGTGGTCACAGGTGGAGAGATTGATGTCAAATATGTGCTGAACATATGTTTACTTCATGCAATCCAAGTTTTATCGACTCTTGGTATGTCATCAAGTGTTTTAACAATCTTATGCTTAAAGACGTCTTTTTTGGCATGGGGTGTACAATTGTACTGATTGTCAATGTGGGTTGATGAGGACCACGAACTTCAACTAAGTCTTATTTTATAGATCTTAATTTTTATGAAGATTTCATCATCATTACCATAAAGTTTTGATATTTATTGAACCCTTTATCTATGGACATACTAAAAAAATATTGAACAAAAAGATTGGTCTAAATTTGTAGGCATCAACCACCGGAGCAATTGGGAGTGCTGAATACTGATTTTTCATTTGTTATTGCTGTGGATGTGAAAGATAAAGAGTATTGTATACACAAATGAATCCGGGTGAAAGATGGCACCTCCACCCCCTCGTTCCTTCTCTAATTTCCTAAAGGATTTGAATGAAAGGCATTGAATTGATCAAATAGGGAAAAAGAATTATCTACAATCAAGATAAATAGCCAAAGTGAGCTTCTTCTTCTTCTTCTTCTTCTTCTTCTTCTTC

mRNA sequence

CCCGCCAATGGAAGAAAACTTCTCTTTCGCCTGATCGACGTTTCTAGAACCGCAGCCGATTACGGATAGATGCGTTGGCTGAGCATTCCAGTTATTCCACTCCTCAAATTCGTTCTTTCTGTTGAGTATAGCGTTTGATTTTTGCGCAGATTCCTTCTGATTTTCAGCTGAACAGCTGCTAAAACCCTAGCTGAAAGTTGATCTGTATTAGTTCAGGGTTTCTTGTTTTTCTATCTTCTGCAAGATGAGTACCATGAAGTTTTGCCGGGAATGTAACAACATTCTCTATCCGAAGGAGGATAGGGATGAGAAGATTCTTCTCTATGCGTGTCGCAACTGTGATCACCAGGAAGTTGCTGACAATAACTGTGTCTATAGGAATGAGATTCATCACGCCGTAGGGGAACGCACTCAAGTTCTGCAAGATGTTGCTGCGGATCCAACACTCCCTCGCACAAAAGCTGTTCGATGTGCTCAATGCAACCATGGAGAAGCTGTTTTCTTCCAGGCCACTGCCAGAGGGGAGGAAGGTATGACATTATTCTTCGTTTGCTGCAATCCAAATTGTGGTCACAGGTGGAGAGATTGATGTCAAATATGTGCTGAACATATGTTTACTTCATGCAATCCAAGTTTTATCGACTCTTGGTATGTCATCAAGTGTTTTAACAATCTTATGCTTAAAGACGTCTTTTTTGGCATGGGGTGTACAATTGTACTGATTGTCAATGTGGGTTGATGAGGACCACGAACTTCAACTAAGTCTTATTTTATAGATCTTAATTTTTATGAAGATTTCATCATCATTACCATAAAGTTTTGATATTTATTGAACCCTTTATCTATGGACATACTAAAAAAATATTGAACAAAAAGATTGGTCTAAATTTGTAGGCATCAACCACCGGAGCAATTGGGAGTGCTGAATACTGATTTTTCATTTGTTATTGCTGTGGATGTGAAAGATAAAGAGTATTGTATACACAAATGAATCCGGGTGAAAGATGGCACCTCCACCCCCTCGTTCCTTCTCTAATTTCCTAAAGGATTTGAATGAAAGGCATTGAATTGATCAAATAGGGAAAAAGAATTATCTACAATCAAGATAAATAGCCAAAGTGAGCTTCTTCTTCTTCTTCTTCTTCTTCTTCTTCTTC

Coding sequence (CDS)

ATGAGTACCATGAAGTTTTGCCGGGAATGTAACAACATTCTCTATCCGAAGGAGGATAGGGATGAGAAGATTCTTCTCTATGCGTGTCGCAACTGTGATCACCAGGAAGTTGCTGACAATAACTGTGTCTATAGGAATGAGATTCATCACGCCGTAGGGGAACGCACTCAAGTTCTGCAAGATGTTGCTGCGGATCCAACACTCCCTCGCACAAAAGCTGTTCGATGTGCTCAATGCAACCATGGAGAAGCTGTTTTCTTCCAGGCCACTGCCAGAGGGGAGGAAGGTATGACATTATTCTTCGTTTGCTGCAATCCAAATTGTGGTCACAGGTGGAGAGATTGA

Protein sequence

MSTMKFCRECNNILYPKEDRDEKILLYACRNCDHQEVADNNCVYRNEIHHAVGERTQVLQDVAADPTLPRTKAVRCAQCNHGEAVFFQATARGEEGMTLFFVCCNPNCGHRWRD

Homology

[Close]

BLAST of Carg23740 vs. NCBI nr
Match: XP_008438942.1 (PREDICTED: DNA-directed RNA polymerases II, IV and V subunit 9A [Cucumis melo] >XP_011651080.1 PREDICTED: DNA-directed RNA polymerases II, IV and V subunit 9A [Cucumis sativus] >XP_022137993.1 DNA-directed RNA polymerases II, IV and V subunit 9A isoform X2 [Momordica charantia] >XP_022939240.1 DNA-directed RNA polymerases II, IV and V subunit 9A [Cucurbita moschata] >XP_022972305.1 DNA-directed RNA polymerases II, IV and V subunit 9A [Cucurbita maxima] >XP_022972306.1 DNA-directed RNA polymerases II, IV and V subunit 9A [Cucurbita maxima] >XP_023539282.1 DNA-directed RNA polymerases II, IV and V subunit 9A [Cucurbita pepo subsp. pepo] >XP_023539283.1 DNA-directed RNA polymerases II, IV and V subunit 9A [Cucurbita pepo subsp. pepo] >KGN57159.1 hypothetical protein Csa_3G166240 [Cucumis sativus])

HSP 1 Score: 254.2 bits (648), Expect = 2.1e-64
Identity = 114/114 (100.00%), Postives = 114/114 (100.00%), Query Frame = 0


Query: 1   MSTMKFCRECNNILYPKEDRDEKILLYACRNCDHQEVADNNCVYRNEIHHAVGERTQVLQ 60
           MSTMKFCRECNNILYPKEDRDEKILLYACRNCDHQEVADNNCVYRNEIHHAVGERTQVLQ
Sbjct: 1   MSTMKFCRECNNILYPKEDRDEKILLYACRNCDHQEVADNNCVYRNEIHHAVGERTQVLQ 60

Query: 61  DVAADPTLPRTKAVRCAQCNHGEAVFFQATARGEEGMTLFFVCCNPNCGHRWRD 115
           DVAADPTLPRTKAVRCAQCNHGEAVFFQATARGEEGMTLFFVCCNPNCGHRWRD
Sbjct: 61  DVAADPTLPRTKAVRCAQCNHGEAVFFQATARGEEGMTLFFVCCNPNCGHRWRD 114

[Close]

BLAST of Carg23740 vs. NCBI nr
Match: XP_024019992.1 (DNA-directed RNA polymerases II, IV and V subunit 9A [Morus notabilis])

HSP 1 Score: 250.8 bits (639), Expect = 2.3e-63
Identity = 111/114 (97.37%), Postives = 114/114 (100.00%), Query Frame = 0


Query: 1   MSTMKFCRECNNILYPKEDRDEKILLYACRNCDHQEVADNNCVYRNEIHHAVGERTQVLQ 60
           MSTMKFCRECNNILYPKEDRD+KILLYACRNCDHQEVADNNCVYRNEIHH+VGERTQVLQ
Sbjct: 1   MSTMKFCRECNNILYPKEDRDQKILLYACRNCDHQEVADNNCVYRNEIHHSVGERTQVLQ 60

Query: 61  DVAADPTLPRTKAVRCAQCNHGEAVFFQATARGEEGMTLFFVCCNPNCGHRWRD 115
           DVAADPTLPRTK+VRCAQCNHGEAVFFQATARGEEGMTLFFVCCNPNCGHRWRD
Sbjct: 61  DVAADPTLPRTKSVRCAQCNHGEAVFFQATARGEEGMTLFFVCCNPNCGHRWRD 114

[Close]

BLAST of Carg23740 vs. NCBI nr
Match: XP_024963039.1 (DNA-directed RNA polymerases II, IV and V subunit 9A [Cynara cardunculus var. scolymus] >KVH87674.1 DNA-directed RNA polymerase, M/15kDa subunit [Cynara cardunculus var. scolymus])

HSP 1 Score: 249.6 bits (636), Expect = 5.1e-63
Identity = 111/114 (97.37%), Postives = 113/114 (99.12%), Query Frame = 0


Query: 1   MSTMKFCRECNNILYPKEDRDEKILLYACRNCDHQEVADNNCVYRNEIHHAVGERTQVLQ 60
           MSTMKFCRECNNILYPKED+D+KILLYACRNCDHQEVADNNCVYRNEIHHAVGERTQVLQ
Sbjct: 1   MSTMKFCRECNNILYPKEDKDQKILLYACRNCDHQEVADNNCVYRNEIHHAVGERTQVLQ 60

Query: 61  DVAADPTLPRTKAVRCAQCNHGEAVFFQATARGEEGMTLFFVCCNPNCGHRWRD 115
           DVAADPTLPRTKAVRCAQC HGEAVFFQATARGEEGMTLFFVCCNPNCGHRWRD
Sbjct: 61  DVAADPTLPRTKAVRCAQCGHGEAVFFQATARGEEGMTLFFVCCNPNCGHRWRD 114

[Close]

BLAST of Carg23740 vs. NCBI nr
Match: XP_024986373.1 (DNA-directed RNA polymerases II, IV and V subunit 9B [Cynara cardunculus var. scolymus] >XP_024986374.1 DNA-directed RNA polymerases II, IV and V subunit 9B [Cynara cardunculus var. scolymus] >XP_024986376.1 DNA-directed RNA polymerases II, IV and V subunit 9B [Cynara cardunculus var. scolymus])

HSP 1 Score: 248.1 bits (632), Expect = 1.5e-62
Identity = 110/114 (96.49%), Postives = 112/114 (98.25%), Query Frame = 0


Query: 1   MSTMKFCRECNNILYPKEDRDEKILLYACRNCDHQEVADNNCVYRNEIHHAVGERTQVLQ 60
           MSTMKFCRECNNILYPKED+D+KILLYACRNCDHQE ADNNCVYRNEIHHAVGERTQVLQ
Sbjct: 1   MSTMKFCRECNNILYPKEDKDQKILLYACRNCDHQEAADNNCVYRNEIHHAVGERTQVLQ 60

Query: 61  DVAADPTLPRTKAVRCAQCNHGEAVFFQATARGEEGMTLFFVCCNPNCGHRWRD 115
           DVAADPTLPRTKAVRCAQC HGEAVFFQATARGEEGMTLFFVCCNPNCGHRWRD
Sbjct: 61  DVAADPTLPRTKAVRCAQCGHGEAVFFQATARGEEGMTLFFVCCNPNCGHRWRD 114

[Close]

BLAST of Carg23740 vs. NCBI nr
Match: PON61921.1 (DNA-directed RNA polymerase subunit/transcription factor [Parasponia andersonii] >PON93217.1 DNA-directed RNA polymerase subunit/transcription factor [Trema orientalis])

HSP 1 Score: 247.7 bits (631), Expect = 1.9e-62
Identity = 110/114 (96.49%), Postives = 113/114 (99.12%), Query Frame = 0


Query: 1   MSTMKFCRECNNILYPKEDRDEKILLYACRNCDHQEVADNNCVYRNEIHHAVGERTQVLQ 60
           MSTMKFCRECNNILYPKEDRD KILLYACRNCDHQEVADNNCVYRNEIHH+VGERTQVLQ
Sbjct: 1   MSTMKFCRECNNILYPKEDRDNKILLYACRNCDHQEVADNNCVYRNEIHHSVGERTQVLQ 60

Query: 61  DVAADPTLPRTKAVRCAQCNHGEAVFFQATARGEEGMTLFFVCCNPNCGHRWRD 115
           DVAADPTLPRTK+VRCAQCNHGEAVFFQATARGEEGMTLFFVCCNPNCG+RWRD
Sbjct: 61  DVAADPTLPRTKSVRCAQCNHGEAVFFQATARGEEGMTLFFVCCNPNCGYRWRD 114

[Close]

BLAST of Carg23740 vs. TAIR10
Match: AT3G16980.1 (RNA polymerases M/15 Kd subunit)

HSP 1 Score: 231.1 bits (588), Expect = 3.4e-61
Identity = 99/114 (86.84%), Postives = 110/114 (96.49%), Query Frame = 0


Query: 1   MSTMKFCRECNNILYPKEDRDEKILLYACRNCDHQEVADNNCVYRNEIHHAVGERTQVLQ 60
           MSTMKFCRECNNILYPKED+++KILLYACRNCDHQEVADN+CVYRNE+HH+V ERTQ+L 
Sbjct: 1   MSTMKFCRECNNILYPKEDKEQKILLYACRNCDHQEVADNSCVYRNEVHHSVSERTQILT 60

Query: 61  DVAADPTLPRTKAVRCAQCNHGEAVFFQATARGEEGMTLFFVCCNPNCGHRWRD 115
           DVA+DPTLPRTKAVRC++C H EAVFFQATARGEEGMTLFFVCCNPNCGHRWR+
Sbjct: 61  DVASDPTLPRTKAVRCSKCQHREAVFFQATARGEEGMTLFFVCCNPNCGHRWRE 114

[Close]

BLAST of Carg23740 vs. TAIR10
Match: AT4G16265.1 (RNA polymerases M/15 Kd subunit)

HSP 1 Score: 230.3 bits (586), Expect = 5.8e-61
Identity = 98/114 (85.96%), Postives = 108/114 (94.74%), Query Frame = 0


Query: 1   MSTMKFCRECNNILYPKEDRDEKILLYACRNCDHQEVADNNCVYRNEIHHAVGERTQVLQ 60
           MSTMKFCRECNNILYPKED+++ ILLYACRNCDHQE ADNNCVYRNE+HH+V E+TQ+L 
Sbjct: 1   MSTMKFCRECNNILYPKEDKEQSILLYACRNCDHQEAADNNCVYRNEVHHSVSEQTQILS 60

Query: 61  DVAADPTLPRTKAVRCAQCNHGEAVFFQATARGEEGMTLFFVCCNPNCGHRWRD 115
           DVA+DPTLPRTKAVRCA+C HGEAVFFQATARGEEGMTLFFVCCNPNC HRWR+
Sbjct: 61  DVASDPTLPRTKAVRCAKCQHGEAVFFQATARGEEGMTLFFVCCNPNCSHRWRE 114

[Close]

BLAST of Carg23740 vs. Swiss-Prot
Match: sp|Q6NLH0|RPB9A_ARATH (DNA-directed RNA polymerases II, IV and V subunit 9A OS=Arabidopsis thaliana OX=3702 GN=NRPB9A PE=1 SV=1)

HSP 1 Score: 231.1 bits (588), Expect = 6.1e-60
Identity = 99/114 (86.84%), Postives = 110/114 (96.49%), Query Frame = 0


Query: 1   MSTMKFCRECNNILYPKEDRDEKILLYACRNCDHQEVADNNCVYRNEIHHAVGERTQVLQ 60
           MSTMKFCRECNNILYPKED+++KILLYACRNCDHQEVADN+CVYRNE+HH+V ERTQ+L 
Sbjct: 1   MSTMKFCRECNNILYPKEDKEQKILLYACRNCDHQEVADNSCVYRNEVHHSVSERTQILT 60

Query: 61  DVAADPTLPRTKAVRCAQCNHGEAVFFQATARGEEGMTLFFVCCNPNCGHRWRD 115
           DVA+DPTLPRTKAVRC++C H EAVFFQATARGEEGMTLFFVCCNPNCGHRWR+
Sbjct: 61  DVASDPTLPRTKAVRCSKCQHREAVFFQATARGEEGMTLFFVCCNPNCGHRWRE 114

[Close]

BLAST of Carg23740 vs. Swiss-Prot
Match: sp|Q8L5V0|RPB9B_ARATH (DNA-directed RNA polymerases II, IV and V subunit 9B OS=Arabidopsis thaliana OX=3702 GN=NRPB9B PE=1 SV=1)

HSP 1 Score: 230.3 bits (586), Expect = 1.0e-59
Identity = 98/114 (85.96%), Postives = 108/114 (94.74%), Query Frame = 0


Query: 1   MSTMKFCRECNNILYPKEDRDEKILLYACRNCDHQEVADNNCVYRNEIHHAVGERTQVLQ 60
           MSTMKFCRECNNILYPKED+++ ILLYACRNCDHQE ADNNCVYRNE+HH+V E+TQ+L 
Sbjct: 1   MSTMKFCRECNNILYPKEDKEQSILLYACRNCDHQEAADNNCVYRNEVHHSVSEQTQILS 60

Query: 61  DVAADPTLPRTKAVRCAQCNHGEAVFFQATARGEEGMTLFFVCCNPNCGHRWRD 115
           DVA+DPTLPRTKAVRCA+C HGEAVFFQATARGEEGMTLFFVCCNPNC HRWR+
Sbjct: 61  DVASDPTLPRTKAVRCAKCQHGEAVFFQATARGEEGMTLFFVCCNPNCSHRWRE 114

[Close]

BLAST of Carg23740 vs. Swiss-Prot
Match: sp|Q32P73|RPB9_BOVIN (DNA-directed RNA polymerase II subunit RPB9 OS=Bos taurus OX=9913 GN=POLR2I PE=1 SV=1)

HSP 1 Score: 158.3 bits (399), Expect = 5.1e-38
Identity = 66/112 (58.93%), Postives = 90/112 (80.36%), Query Frame = 0


Query: 4   MKFCRECNNILYPKEDRDEKILLYACRNCDHQEVADNNCVYRNEIHHAVGERTQVLQDVA 63
           ++FC+ECNN+LYPKED++ +ILLYACRNCD+Q+ ADN+C+Y N+I H V E TQ++ DV+
Sbjct: 14  IRFCQECNNMLYPKEDKENRILLYACRNCDYQQEADNSCIYVNKITHEVDELTQIIADVS 73

Query: 64  ADPTLPRTKAVRCAQCNHGEAVFFQA-TARGEEGMTLFFVCCNPNCGHRWRD 115
            DPTLPRT+   C +C H EAVFFQ+ +AR E+ M L++VC  P+CGHRW +
Sbjct: 74  QDPTLPRTEDHPCQKCGHKEAVFFQSHSARAEDAMRLYYVCTAPHCGHRWTE 125

[Close]

BLAST of Carg23740 vs. Swiss-Prot
Match: sp|P36954|RPB9_HUMAN (DNA-directed RNA polymerase II subunit RPB9 OS=Homo sapiens OX=9606 GN=POLR2I PE=1 SV=1)

HSP 1 Score: 158.3 bits (399), Expect = 5.1e-38
Identity = 66/112 (58.93%), Postives = 90/112 (80.36%), Query Frame = 0


Query: 4   MKFCRECNNILYPKEDRDEKILLYACRNCDHQEVADNNCVYRNEIHHAVGERTQVLQDVA 63
           ++FC+ECNN+LYPKED++ +ILLYACRNCD+Q+ ADN+C+Y N+I H V E TQ++ DV+
Sbjct: 14  IRFCQECNNMLYPKEDKENRILLYACRNCDYQQEADNSCIYVNKITHEVDELTQIIADVS 73

Query: 64  ADPTLPRTKAVRCAQCNHGEAVFFQA-TARGEEGMTLFFVCCNPNCGHRWRD 115
            DPTLPRT+   C +C H EAVFFQ+ +AR E+ M L++VC  P+CGHRW +
Sbjct: 74  QDPTLPRTEDHPCQKCGHKEAVFFQSHSARAEDAMRLYYVCTAPHCGHRWTE 125

[Close]

BLAST of Carg23740 vs. Swiss-Prot
Match: sp|P60898|RPB9_MOUSE (DNA-directed RNA polymerase II subunit RPB9 OS=Mus musculus OX=10090 GN=Polr2i PE=1 SV=1)

HSP 1 Score: 158.3 bits (399), Expect = 5.1e-38
Identity = 66/112 (58.93%), Postives = 90/112 (80.36%), Query Frame = 0


Query: 4   MKFCRECNNILYPKEDRDEKILLYACRNCDHQEVADNNCVYRNEIHHAVGERTQVLQDVA 63
           ++FC+ECNN+LYPKED++ +ILLYACRNCD+Q+ ADN+C+Y N+I H V E TQ++ DV+
Sbjct: 14  IRFCQECNNMLYPKEDKENRILLYACRNCDYQQEADNSCIYVNKITHEVDELTQIIADVS 73

Query: 64  ADPTLPRTKAVRCAQCNHGEAVFFQA-TARGEEGMTLFFVCCNPNCGHRWRD 115
            DPTLPRT+   C +C H EAVFFQ+ +AR E+ M L++VC  P+CGHRW +
Sbjct: 74  QDPTLPRTEDHPCQKCGHKEAVFFQSHSARAEDAMRLYYVCTAPHCGHRWTE 125

[Close]

BLAST of Carg23740 vs. TrEMBL
Match: tr|A0A1S3AY93|A0A1S3AY93_CUCME (DNA-directed RNA polymerase subunit OS=Cucumis melo OX=3656 GN=LOC103483886 PE=3 SV=1)

HSP 1 Score: 254.2 bits (648), Expect = 1.4e-64
Identity = 114/114 (100.00%), Postives = 114/114 (100.00%), Query Frame = 0


Query: 1   MSTMKFCRECNNILYPKEDRDEKILLYACRNCDHQEVADNNCVYRNEIHHAVGERTQVLQ 60
           MSTMKFCRECNNILYPKEDRDEKILLYACRNCDHQEVADNNCVYRNEIHHAVGERTQVLQ
Sbjct: 1   MSTMKFCRECNNILYPKEDRDEKILLYACRNCDHQEVADNNCVYRNEIHHAVGERTQVLQ 60

Query: 61  DVAADPTLPRTKAVRCAQCNHGEAVFFQATARGEEGMTLFFVCCNPNCGHRWRD 115
           DVAADPTLPRTKAVRCAQCNHGEAVFFQATARGEEGMTLFFVCCNPNCGHRWRD
Sbjct: 61  DVAADPTLPRTKAVRCAQCNHGEAVFFQATARGEEGMTLFFVCCNPNCGHRWRD 114

[Close]

BLAST of Carg23740 vs. TrEMBL
Match: tr|A0A0A0L816|A0A0A0L816_CUCSA (DNA-directed RNA polymerase subunit OS=Cucumis sativus OX=3659 GN=Csa_3G166240 PE=3 SV=1)

HSP 1 Score: 254.2 bits (648), Expect = 1.4e-64
Identity = 114/114 (100.00%), Postives = 114/114 (100.00%), Query Frame = 0


Query: 1   MSTMKFCRECNNILYPKEDRDEKILLYACRNCDHQEVADNNCVYRNEIHHAVGERTQVLQ 60
           MSTMKFCRECNNILYPKEDRDEKILLYACRNCDHQEVADNNCVYRNEIHHAVGERTQVLQ
Sbjct: 1   MSTMKFCRECNNILYPKEDRDEKILLYACRNCDHQEVADNNCVYRNEIHHAVGERTQVLQ 60

Query: 61  DVAADPTLPRTKAVRCAQCNHGEAVFFQATARGEEGMTLFFVCCNPNCGHRWRD 115
           DVAADPTLPRTKAVRCAQCNHGEAVFFQATARGEEGMTLFFVCCNPNCGHRWRD
Sbjct: 61  DVAADPTLPRTKAVRCAQCNHGEAVFFQATARGEEGMTLFFVCCNPNCGHRWRD 114

[Close]

BLAST of Carg23740 vs. TrEMBL
Match: tr|A0A103XBI1|A0A103XBI1_CYNCS (DNA-directed RNA polymerase subunit OS=Cynara cardunculus var. scolymus OX=59895 GN=Ccrd_025042 PE=3 SV=1)

HSP 1 Score: 249.6 bits (636), Expect = 3.4e-63
Identity = 111/114 (97.37%), Postives = 113/114 (99.12%), Query Frame = 0


Query: 1   MSTMKFCRECNNILYPKEDRDEKILLYACRNCDHQEVADNNCVYRNEIHHAVGERTQVLQ 60
           MSTMKFCRECNNILYPKED+D+KILLYACRNCDHQEVADNNCVYRNEIHHAVGERTQVLQ
Sbjct: 1   MSTMKFCRECNNILYPKEDKDQKILLYACRNCDHQEVADNNCVYRNEIHHAVGERTQVLQ 60

Query: 61  DVAADPTLPRTKAVRCAQCNHGEAVFFQATARGEEGMTLFFVCCNPNCGHRWRD 115
           DVAADPTLPRTKAVRCAQC HGEAVFFQATARGEEGMTLFFVCCNPNCGHRWRD
Sbjct: 61  DVAADPTLPRTKAVRCAQCGHGEAVFFQATARGEEGMTLFFVCCNPNCGHRWRD 114

[Close]

BLAST of Carg23740 vs. TrEMBL
Match: tr|A0A2P5F602|A0A2P5F602_9ROSA (DNA-directed RNA polymerase subunit OS=Trema orientalis OX=63057 GN=TorRG33x02_111230 PE=3 SV=1)

HSP 1 Score: 247.7 bits (631), Expect = 1.3e-62
Identity = 110/114 (96.49%), Postives = 113/114 (99.12%), Query Frame = 0


Query: 1   MSTMKFCRECNNILYPKEDRDEKILLYACRNCDHQEVADNNCVYRNEIHHAVGERTQVLQ 60
           MSTMKFCRECNNILYPKEDRD KILLYACRNCDHQEVADNNCVYRNEIHH+VGERTQVLQ
Sbjct: 1   MSTMKFCRECNNILYPKEDRDNKILLYACRNCDHQEVADNNCVYRNEIHHSVGERTQVLQ 60

Query: 61  DVAADPTLPRTKAVRCAQCNHGEAVFFQATARGEEGMTLFFVCCNPNCGHRWRD 115
           DVAADPTLPRTK+VRCAQCNHGEAVFFQATARGEEGMTLFFVCCNPNCG+RWRD
Sbjct: 61  DVAADPTLPRTKSVRCAQCNHGEAVFFQATARGEEGMTLFFVCCNPNCGYRWRD 114

[Close]

BLAST of Carg23740 vs. TrEMBL
Match: tr|A0A2P5CLL0|A0A2P5CLL0_PARAD (DNA-directed RNA polymerase subunit OS=Parasponia andersonii OX=3476 GN=PanWU01x14_141230 PE=3 SV=1)

HSP 1 Score: 247.7 bits (631), Expect = 1.3e-62
Identity = 110/114 (96.49%), Postives = 113/114 (99.12%), Query Frame = 0


Query: 1   MSTMKFCRECNNILYPKEDRDEKILLYACRNCDHQEVADNNCVYRNEIHHAVGERTQVLQ 60
           MSTMKFCRECNNILYPKEDRD KILLYACRNCDHQEVADNNCVYRNEIHH+VGERTQVLQ
Sbjct: 1   MSTMKFCRECNNILYPKEDRDNKILLYACRNCDHQEVADNNCVYRNEIHHSVGERTQVLQ 60

Query: 61  DVAADPTLPRTKAVRCAQCNHGEAVFFQATARGEEGMTLFFVCCNPNCGHRWRD 115
           DVAADPTLPRTK+VRCAQCNHGEAVFFQATARGEEGMTLFFVCCNPNCG+RWRD
Sbjct: 61  DVAADPTLPRTKSVRCAQCNHGEAVFFQATARGEEGMTLFFVCCNPNCGYRWRD 114

The following BLAST results are available for this feature:

BLAST of Carg23740 vs. NCBI nr


Match Name	E-value	Identity	Description
XP_008438942.1	2.1e-64	100.00	PREDICTED: DNA-directed RNA polymerases II, IV and V subunit 9A [Cucumis melo] >...	[more]
XP_024019992.1	2.3e-63	97.37	DNA-directed RNA polymerases II, IV and V subunit 9A [Morus notabilis]	[more]
XP_024963039.1	5.1e-63	97.37	DNA-directed RNA polymerases II, IV and V subunit 9A [Cynara cardunculus var. sc...	[more]
XP_024986373.1	1.5e-62	96.49	DNA-directed RNA polymerases II, IV and V subunit 9B [Cynara cardunculus var. sc...	[more]
PON61921.1	1.9e-62	96.49	DNA-directed RNA polymerase subunit/transcription factor [Parasponia andersonii]...	[more]

BLAST of Carg23740 vs. TAIR10


Match Name	E-value	Identity	Description
AT3G16980.1	3.4e-61	86.84	RNA polymerases M/15 Kd subunit	[more]
AT4G16265.1	5.8e-61	85.96	RNA polymerases M/15 Kd subunit	[more]

BLAST of Carg23740 vs. Swiss-Prot


Match Name	E-value	Identity	Description
sp\|Q6NLH0\|RPB9A_ARATH	6.1e-60	86.84	DNA-directed RNA polymerases II, IV and V subunit 9A OS=Arabidopsis thaliana OX=...	[more]
sp\|Q8L5V0\|RPB9B_ARATH	1.0e-59	85.96	DNA-directed RNA polymerases II, IV and V subunit 9B OS=Arabidopsis thaliana OX=...	[more]
sp\|Q32P73\|RPB9_BOVIN	5.1e-38	58.93	DNA-directed RNA polymerase II subunit RPB9 OS=Bos taurus OX=9913 GN=POLR2I PE=1...	[more]
sp\|P36954\|RPB9_HUMAN	5.1e-38	58.93	DNA-directed RNA polymerase II subunit RPB9 OS=Homo sapiens OX=9606 GN=POLR2I PE...	[more]
sp\|P60898\|RPB9_MOUSE	5.1e-38	58.93	DNA-directed RNA polymerase II subunit RPB9 OS=Mus musculus OX=10090 GN=Polr2i P...	[more]

BLAST of Carg23740 vs. TrEMBL


Match Name	E-value	Identity	Description
tr\|A0A1S3AY93\|A0A1S3AY93_CUCME	1.4e-64	100.00	DNA-directed RNA polymerase subunit OS=Cucumis melo OX=3656 GN=LOC103483886 PE=3...	[more]
tr\|A0A0A0L816\|A0A0A0L816_CUCSA	1.4e-64	100.00	DNA-directed RNA polymerase subunit OS=Cucumis sativus OX=3659 GN=Csa_3G166240 P...	[more]
tr\|A0A103XBI1\|A0A103XBI1_CYNCS	3.4e-63	97.37	DNA-directed RNA polymerase subunit OS=Cynara cardunculus var. scolymus OX=59895...	[more]
tr\|A0A2P5F602\|A0A2P5F602_9ROSA	1.3e-62	96.49	DNA-directed RNA polymerase subunit OS=Trema orientalis OX=63057 GN=TorRG33x02_1...	[more]
tr\|A0A2P5CLL0\|A0A2P5CLL0_PARAD	1.3e-62	96.49	DNA-directed RNA polymerase subunit OS=Parasponia andersonii OX=3476 GN=PanWU01x...	[more]

Annotated Terms

The following terms have been associated with this gene:

Vocabulary: **Biological Process**
Term	Definition
GO:0006379	mRNA cleavage
GO:0006351	transcription, DNA-templated

Vocabulary: **Molecular Function**
Term	Definition
GO:0008270	zinc ion binding
GO:0003676	nucleic acid binding

Vocabulary: **INTERPRO**
Term	Definition
IPR034012	Zn_ribbon_RPB9_C
IPR019761	DNA-dir_RNA_pol-M_15_CS
IPR012164	Rpa12/Rpb9/Rpc10/TFS
IPR001529	DNA-dir_RNA_pol_M/15kDasu
IPR001222	Znf_TFIIS

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
biological_process	GO:0006379	mRNA cleavage
cellular_component	GO:0005575	cellular_component
molecular_function	GO:0003676	nucleic acid binding
molecular_function	GO:0008270	zinc ion binding
molecular_function	GO:0003674	molecular_function

Relationships

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


Feature Name	Unique Name	Type
Carg23740-RA	Carg23740-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
IPR001222	Zinc finger, TFIIS-type	SMART	SM00440	Cys4_2	coord: 74..114 e-value: 2.3E-6 score: 37.2
IPR001222	Zinc finger, TFIIS-type	PFAM	PF01096	TFIIS_C	coord: 75..113 e-value: 6.6E-11 score: 41.8
IPR001222	Zinc finger, TFIIS-type	PROSITE	PS51133	ZF_TFIIS_2	coord: 72..113 score: 12.77
IPR001529	DNA-directed RNA polymerase, M/15kDa subunit	SMART	SM00661	rpol9cneu	coord: 5..58 e-value: 7.7E-16 score: 68.6
IPR001529	DNA-directed RNA polymerase, M/15kDa subunit	PFAM	PF02150	RNA_POL_M_15KD	coord: 4..36 e-value: 3.1E-11 score: 42.8
None	No IPR available	GENE3D	G3DSA:2.20.25.10		coord: 47..114 e-value: 1.2E-30 score: 107.1
None	No IPR available	GENE3D	G3DSA:2.20.25.10		coord: 1..46 e-value: 2.9E-26 score: 92.6
None	No IPR available	PANTHER	PTHR11239	DNA-DIRECTED RNA POLYMERASE	coord: 1..114
None	No IPR available	PANTHER	PTHR11239:SF15	SUBFAMILY NOT NAMED	coord: 1..114
None	No IPR available	SUPERFAMILY	SSF57783	Zinc beta-ribbon	coord: 52..114
None	No IPR available	SUPERFAMILY	SSF57783	Zinc beta-ribbon	coord: 1..48
IPR012164	DNA-directed RNA polymerase subunit/transcription factor S	PIRSF	PIRSF005586	RNApol_RpoM	coord: 4..114 e-value: 5.9E-20 score: 69.8
IPR019761	DNA-directed RNA polymerase M, 15kDa subunit, conserved site	PROSITE	PS01030	RNA_POL_M_15KD	coord: 6..32
IPR034012	Pol II subunit B9, C-terminal zinc ribbon	CDD	cd10508	Zn-ribbon_RPB9	coord: 64..113 e-value: 1.52477E-20 score: 78.0638

Synteny

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


Gene	Orthologue	Organism	Block
Carg23740	Cla021782	Watermelon (97103) v1	carwmB0953
Carg23740	Csa3G166240	Cucumber (Chinese Long) v2	carcuB0967
Carg23740	MELO3C006706	Melon (DHL92) v3.5.1	carmeB0934
Carg23740	ClCG05G006460	Watermelon (Charleston Gray)	carwcgB0929
Carg23740	CSPI03G14900	Wild cucumber (PI 183967)	carcpiB0989
Carg23740	Cucsa.252620	Cucumber (Gy14) v1	carcgyB1072
Carg23740	CmaCh06G015570	Cucurbita maxima (Rimu)	carcmaB1307
Carg23740	CmaCh14G015950	Cucurbita maxima (Rimu)	carcmaB1304
Carg23740	CmoCh06G015550	Cucurbita moschata (Rifu)	carcmoB1276
Carg23740	CmoCh14G016270	Cucurbita moschata (Rifu)	carcmoB1273
Carg23740	Lsi05G015850	Bottle gourd (USVL1VR-Ls)	carlsiB869
Carg23740	Cp4.1LG03g11720	Cucurbita pepo (Zucchini)	carcpeB1320
Carg23740	Cp4.1LG08g05130	Cucurbita pepo (Zucchini)	carcpeB1321
Carg23740	CsGy3G015010	Cucumber (Gy14) v2	carcgybB0939
Carg23740	Cla97C05G088090	Watermelon (97103) v2	carwmbB1003
Carg23740	Bhi01G000773	Wax gourd	carwgoB1105

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


Gene	Paralogue	Organism	Block
Carg23740	Carg19630	Silver-seed gourd	carcarB318

The following block(s) are covering this gene:


Gene	Organism	Block
Carg23740	Cucurbita maxima (Rimu)	carcmaB1305
Carg23740	Cucumber (Chinese Long) v3	carcucB0995
Carg23740	Melon (DHL92) v3.6.1	carmedB0940