CuGenDBv2

Gene ID	Carg19630
Organism	Cucurbita argyrosperma subsp. argyrosperma cv. SMH-JMG-627 (Silver-seed gourd (SMH-JMG-627) v2)
Description	DNA-directed RNA polymerase subunit
Genome location	Carg_Chr14:11856683..11859819
RNA-Seq Expression	Carg19630
Synteny	Carg19630
Gene Ontology terms	GO:0001193 - maintenance of transcriptional fidelity during DNA-templated transcription elongation from RNA polymerase II promoter (biological process) GO:0006283 - transcription-coupled nucleotide-excision repair (biological process) GO:0006367 - transcription initiation from RNA polymerase II promoter (biological process) GO:0006379 - mRNA cleavage (biological process) GO:0005665 - RNA polymerase II, core complex (cellular component) GO:0005730 - nucleolus (cellular component) GO:0003676 - nucleic acid binding (molecular function) GO:0003899 - DNA-directed 5'-3' RNA polymerase activity (molecular function) GO:0008270 - zinc ion binding (molecular function)
InterPro domains	IPR001529 - DNA-directed RNA polymerase, M/15kDa subunit IPR012164 - DNA-directed RNA polymerase subunit/transcription factor S IPR019761 - DNA-directed RNA polymerase M, 15kDa subunit, conserved site

Homology

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GenBank top hits

e value

%identity

Alignment

KAG5559831.1 hypothetical protein RHGRI_003204 [Rhododendron griersonianum]

4.2e-13

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Query:  MSTMKFCRECNDILYPKEDRDEKILLYACRNCDHQIQLSL----ALKLSDVLNVTMEKLFSSRPL
        MSTMKFCRECN+ILYPKED+++KILLYACRNCDHQI L +     L +SD L+ +   +F   P+
Subjt:  MSTMKFCRECNDILYPKEDRDEKILLYACRNCDHQIQLSL----ALKLSDVLNVTMEKLFSSRPL

KAG6582179.1 DNA-directed RNA polymerases II, IV and V subunit 9A, partial [Cucurbita argyrosperma subsp. sororia]

3.8e-30

100

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Query:  MSTMKFCRECNDILYPKEDRDEKILLYACRNCDHQIQLSLALKLSDVLNVTMEKLFSSRPLPEGRKV
        MSTMKFCRECNDILYPKEDRDEKILLYACRNCDHQIQLSLALKLSDVLNVTMEKLFSSRPLPEGRKV
Subjt:  MSTMKFCRECNDILYPKEDRDEKILLYACRNCDHQIQLSLALKLSDVLNVTMEKLFSSRPLPEGRKV

KAG6597567.1 DNA-directed RNA polymerases II, IV and V subunit 9A, partial [Cucurbita argyrosperma subsp. sororia]

6.8e-19

60.42

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Query:  MSTMKFCRECNDILYPKEDRDEKILLYACRNCDHQ-----------------------IQLSLA------LKLSDVLNVTMEKLFSSRPLPEGRKV
        MSTMKFCRECN+ILYPKEDRDEKILLYACRNCDHQ                       +Q   A       K  DVLN TMEKLFSSRPLPEGRKV
Subjt:  MSTMKFCRECNDILYPKEDRDEKILLYACRNCDHQ-----------------------IQLSLA------LKLSDVLNVTMEKLFSSRPLPEGRKV

XP_023895409.1 DNA-directed RNA polymerases II, IV and V subunit 9A [Quercus suber]

4.7e-12

85.71

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Query:  MSTMKFCRECNDILYPKEDRDEKILLYACRNCDHQIQLSLAL
        MSTMKFCRECN+ILYPKED+D+KILLYACRNCDHQ+ LSL+L
Subjt:  MSTMKFCRECNDILYPKEDRDEKILLYACRNCDHQIQLSLAL

XP_030503042.1 DNA-directed RNA polymerases II, IV and V subunit 9A [Cannabis sativa]

6.1e-12

97.14

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Query:  MSTMKFCRECNDILYPKEDRDEKILLYACRNCDHQ
        MSTMKFCRECN+ILYPKEDRDEKILLYACRNCDHQ
Subjt:  MSTMKFCRECNDILYPKEDRDEKILLYACRNCDHQ

TrEMBL top hits

e value

%identity

Alignment

A0A0A0L816 DNA-directed RNA polymerase subunit

3.0e-12

97.14

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Query:  MSTMKFCRECNDILYPKEDRDEKILLYACRNCDHQ
        MSTMKFCRECN+ILYPKEDRDEKILLYACRNCDHQ
Subjt:  MSTMKFCRECNDILYPKEDRDEKILLYACRNCDHQ

A0A5A7U5C7 DNA-directed RNA polymerase subunit

3.0e-12

97.14

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Query:  MSTMKFCRECNDILYPKEDRDEKILLYACRNCDHQ
        MSTMKFCRECN+ILYPKEDRDEKILLYACRNCDHQ
Subjt:  MSTMKFCRECNDILYPKEDRDEKILLYACRNCDHQ

A0A6J1CBU6 DNA-directed RNA polymerase subunit

3.0e-12

97.14

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Query:  MSTMKFCRECNDILYPKEDRDEKILLYACRNCDHQ
        MSTMKFCRECN+ILYPKEDRDEKILLYACRNCDHQ
Subjt:  MSTMKFCRECNDILYPKEDRDEKILLYACRNCDHQ

A0A6J1I879 DNA-directed RNA polymerase subunit

3.0e-12

97.14

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Query:  MSTMKFCRECNDILYPKEDRDEKILLYACRNCDHQ
        MSTMKFCRECN+ILYPKEDRDEKILLYACRNCDHQ
Subjt:  MSTMKFCRECNDILYPKEDRDEKILLYACRNCDHQ

A0A7J6EH48 DNA-directed RNA polymerase subunit

3.0e-12

97.14

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Query:  MSTMKFCRECNDILYPKEDRDEKILLYACRNCDHQ
        MSTMKFCRECN+ILYPKEDRDEKILLYACRNCDHQ
Subjt:  MSTMKFCRECNDILYPKEDRDEKILLYACRNCDHQ

SwissProt top hits

e value

%identity

Alignment

P36954 DNA-directed RNA polymerase II subunit RPB9

5.0e-09

68.75

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Query:  MKFCRECNDILYPKEDRDEKILLYACRNCDHQ
        ++FC+ECN++LYPKED++ +ILLYACRNCD+Q
Subjt:  MKFCRECNDILYPKEDRDEKILLYACRNCDHQ

P60898 DNA-directed RNA polymerase II subunit RPB9

5.0e-09

68.75

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Query:  MKFCRECNDILYPKEDRDEKILLYACRNCDHQ
        ++FC+ECN++LYPKED++ +ILLYACRNCD+Q
Subjt:  MKFCRECNDILYPKEDRDEKILLYACRNCDHQ

Q32P73 DNA-directed RNA polymerase II subunit RPB9

5.0e-09

68.75

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Query:  MKFCRECNDILYPKEDRDEKILLYACRNCDHQ
        ++FC+ECN++LYPKED++ +ILLYACRNCD+Q
Subjt:  MKFCRECNDILYPKEDRDEKILLYACRNCDHQ

Q6NLH0 DNA-directed RNA polymerases II, IV and V subunit 9A

1.2e-13

88.57

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Query:  MSTMKFCRECNDILYPKEDRDEKILLYACRNCDHQ
        MSTMKFCRECN+ILYPKED+++KILLYACRNCDHQ
Subjt:  MSTMKFCRECNDILYPKEDRDEKILLYACRNCDHQ

Q8L5V0 DNA-directed RNA polymerases II, IV and V subunit 9B

4.4e-13

85.71

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Query:  MSTMKFCRECNDILYPKEDRDEKILLYACRNCDHQ
        MSTMKFCRECN+ILYPKED+++ ILLYACRNCDHQ
Subjt:  MSTMKFCRECNDILYPKEDRDEKILLYACRNCDHQ

Arabidopsis top hits

e value

%identity

Alignment

AT3G16980.1 RNA polymerases M/15 Kd subunit

8.2e-15

88.57

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Query:  MSTMKFCRECNDILYPKEDRDEKILLYACRNCDHQ
        MSTMKFCRECN+ILYPKED+++KILLYACRNCDHQ
Subjt:  MSTMKFCRECNDILYPKEDRDEKILLYACRNCDHQ

AT4G16265.1 RNA polymerases M/15 Kd subunit

3.1e-14

85.71

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Query:  MSTMKFCRECNDILYPKEDRDEKILLYACRNCDHQ
        MSTMKFCRECN+ILYPKED+++ ILLYACRNCDHQ
Subjt:  MSTMKFCRECNDILYPKEDRDEKILLYACRNCDHQ

Sequences

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CDS sequence

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mRNA sequence

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ATGAGTACCATGAAGTTTTGTCGGGAATGTAACGACATTCTTTATCCGAAGGAGGACAGAGATGAGAAGATTCTTCTCTATGCGTGTCGCAACTGTGATCACCAGATCCA
ACTCTCCCTCGCACTAAAGCTGTCCGATGTGCTCAATGTAACCATGGAGAAGCTGTTTTCTTCCAGGCCACTGCCAGAGGGGAGAAAGGTATGACATTGTTCTTCGTTTG
CTGCAATCCAAATTGTGGCCAAAGATGGAGAGATTAACATCACCGAAATGCAATCCAAGTTTTATTAGCATG

Protein sequence

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MSTMKFCRECNDILYPKEDRDEKILLYACRNCDHQIQLSLALKLSDVLNVTMEKLFSSRPLPEGRKV

Carg19630 (gene) of Silver-seed gourd (SMH-JMG-627) v2 genome