CuGenDBv2

Gene ID	CmoCh15G002010
Organism	Cucurbita moschata Rifu (Cucurbita moschata (Rifu) v1)
Description	DNA-directed RNA polymerase II subunit 4-like
Genome location	Cmo_Chr15:961080..962040
RNA-Seq Expression	CmoCh15G002010
Synteny	CmoCh15G002010
Gene Ontology terms	GO:0000288 - nuclear-transcribed mRNA catabolic process, deadenylation-dependent decay (biological process) GO:0006367 - transcription initiation from RNA polymerase II promoter (biological process) GO:0031990 - mRNA export from nucleus in response to heat stress (biological process) GO:0034402 - recruitment of 3'-end processing factors to RNA polymerase II holoenzyme complex (biological process) GO:0045948 - positive regulation of translational initiation (biological process) GO:0000932 - P-body (cellular component) GO:0005665 - RNA polymerase II, core complex (cellular component) GO:0000166 - nucleotide binding (molecular function) GO:0003899 - DNA-directed 5'-3' RNA polymerase activity (molecular function) GO:0031369 - translation initiation factor binding (molecular function)
InterPro domains	IPR005574 - RNA polymerase subunit RPB4/RPC9 IPR006590 - RNA polymerase Rpb4/RPC9, core IPR010997 - HRDC-like superfamily IPR038324 - Rpb4/RPC9 superfamily

Homology

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GenBank top hits

e value

%identity

Alignment

KAF4371682.1 hypothetical protein F8388_008622 [Cannabis sativa]

5.7e-21

96.36

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Query:  YQLAEFELCVLGNLCPETVEEAISMVPSLKTKGRAHDDEAIEKMLNDLSLIKKFE
        YQLAEFELCVLGNLCPETVEEAI+MVPS+KTKGRAHDDEAIEKMLNDLSLIKKFE
Subjt:  YQLAEFELCVLGNLCPETVEEAISMVPSLKTKGRAHDDEAIEKMLNDLSLIKKFE

KAG8649808.1 hypothetical protein MANES_08G141900v8 [Manihot esculenta]

5.7e-21

96.36

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Query:  YQLAEFELCVLGNLCPETVEEAISMVPSLKTKGRAHDDEAIEKMLNDLSLIKKFE
        YQLAEFELCVLGNLCPETVEEAI+MVPS+KTKGRAHDDEAIEKMLNDLSLIKKFE
Subjt:  YQLAEFELCVLGNLCPETVEEAISMVPSLKTKGRAHDDEAIEKMLNDLSLIKKFE

KDP23744.1 hypothetical protein JCGZ_23577 [Jatropha curcas]

5.7e-21

96.36

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Query:  YQLAEFELCVLGNLCPETVEEAISMVPSLKTKGRAHDDEAIEKMLNDLSLIKKFE
        YQLAEFELCVLGNLCPETVEEAI+MVPS+KTKGRAHDDEAIEKMLNDLSLIKKFE
Subjt:  YQLAEFELCVLGNLCPETVEEAISMVPSLKTKGRAHDDEAIEKMLNDLSLIKKFE

XP_022133507.1 DNA-directed RNA polymerase II subunit 4 [Momordica charantia]

3.3e-21

98.18

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Query:  YQLAEFELCVLGNLCPETVEEAISMVPSLKTKGRAHDDEAIEKMLNDLSLIKKFE
        YQLAEFELCVLGNLCPETVEEAI+MVPSLKTKGRAHDDEAIEKMLNDLSLIKKFE
Subjt:  YQLAEFELCVLGNLCPETVEEAISMVPSLKTKGRAHDDEAIEKMLNDLSLIKKFE

XP_022939401.1 DNA-directed RNA polymerase II subunit 4-like [Cucurbita moschata]

1.5e-21

100

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Query:  YQLAEFELCVLGNLCPETVEEAISMVPSLKTKGRAHDDEAIEKMLNDLSLIKKFE
        YQLAEFELCVLGNLCPETVEEAISMVPSLKTKGRAHDDEAIEKMLNDLSLIKKFE
Subjt:  YQLAEFELCVLGNLCPETVEEAISMVPSLKTKGRAHDDEAIEKMLNDLSLIKKFE

TrEMBL top hits

e value

%identity

Alignment

A0A6J1BWW4 DNA-directed RNA polymerase II subunit 4

1.6e-21

98.18

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Query:  YQLAEFELCVLGNLCPETVEEAISMVPSLKTKGRAHDDEAIEKMLNDLSLIKKFE
        YQLAEFELCVLGNLCPETVEEAI+MVPSLKTKGRAHDDEAIEKMLNDLSLIKKFE
Subjt:  YQLAEFELCVLGNLCPETVEEAISMVPSLKTKGRAHDDEAIEKMLNDLSLIKKFE

A0A6J1FFS7 DNA-directed RNA polymerase II subunit 4-like

7.3e-22

100

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Query:  YQLAEFELCVLGNLCPETVEEAISMVPSLKTKGRAHDDEAIEKMLNDLSLIKKFE
        YQLAEFELCVLGNLCPETVEEAISMVPSLKTKGRAHDDEAIEKMLNDLSLIKKFE
Subjt:  YQLAEFELCVLGNLCPETVEEAISMVPSLKTKGRAHDDEAIEKMLNDLSLIKKFE

A0A6J1JVN3 DNA-directed RNA polymerase II subunit 4-like

7.3e-22

100

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Query:  YQLAEFELCVLGNLCPETVEEAISMVPSLKTKGRAHDDEAIEKMLNDLSLIKKFE
        YQLAEFELCVLGNLCPETVEEAISMVPSLKTKGRAHDDEAIEKMLNDLSLIKKFE
Subjt:  YQLAEFELCVLGNLCPETVEEAISMVPSLKTKGRAHDDEAIEKMLNDLSLIKKFE

A5APH2 RPOL4c domain-containing protein

2.8e-21

96.36

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Query:  YQLAEFELCVLGNLCPETVEEAISMVPSLKTKGRAHDDEAIEKMLNDLSLIKKFE
        YQLAEFELCVLGNLCPETVEEAI+MVPS+KTKGRAHDDEAIEKMLNDLSLIKKFE
Subjt:  YQLAEFELCVLGNLCPETVEEAISMVPSLKTKGRAHDDEAIEKMLNDLSLIKKFE

B9H5K4 RPOL4c domain-containing protein

2.8e-21

96.36

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Query:  YQLAEFELCVLGNLCPETVEEAISMVPSLKTKGRAHDDEAIEKMLNDLSLIKKFE
        YQLAEFELCVLGNLCPETVEEAI+MVPS+KTKGRAHDDEAIEKMLNDLSLIKKFE
Subjt:  YQLAEFELCVLGNLCPETVEEAISMVPSLKTKGRAHDDEAIEKMLNDLSLIKKFE

SwissProt top hits

e value

%identity

Alignment

O15514 DNA-directed RNA polymerase II subunit RPB4

1.0e-04

42.59

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Query:  QLAEFELCVLGNLCPETVEEAISMVPSLKTKGRAHDDEAIEKMLNDLSLIKKFE
        +L +FEL  L NLCPET EE+ +++PSL  +GR  +DE ++++L+D+   + F+
Subjt:  QLAEFELCVLGNLCPETVEEAISMVPSLKTKGRAHDDEAIEKMLNDLSLIKKFE

O48890 DNA-directed RNA polymerase II subunit 4

1.8e-22

89.09

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Query:  YQLAEFELCVLGNLCPETVEEAISMVPSLKTKGRAHDDEAIEKMLNDLSLIKKFE
        +QL EFELCVLGNLCPETVEEA++MVPSLKTKGRAHDDEAIEKMLNDLSL+K+FE
Subjt:  YQLAEFELCVLGNLCPETVEEAISMVPSLKTKGRAHDDEAIEKMLNDLSLIKKFE

Q54S04 DNA-directed RNA polymerase II subunit rpb4

1.0e-04

44.23

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Query:  LAEFELCVLGNLCPETVEEAISMVPSLKTKGRAHDDEAIEKMLNDLSLIKKF
        L EFE+  L NLCPE  +EA S++PSLK      +D+ ++ +L++LS ++KF
Subjt:  LAEFELCVLGNLCPETVEEAISMVPSLKTKGRAHDDEAIEKMLNDLSLIKKF

Q9D7M8 DNA-directed RNA polymerase II subunit RPB4

1.0e-04

42.59

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Query:  QLAEFELCVLGNLCPETVEEAISMVPSLKTKGRAHDDEAIEKMLNDLSLIKKFE
        +L +FEL  L NLCPET EE+ +++PSL  +GR  +DE ++++L+D+   + F+
Subjt:  QLAEFELCVLGNLCPETVEEAISMVPSLKTKGRAHDDEAIEKMLNDLSLIKKFE

Q9VEA5 DNA-directed RNA polymerase II subunit Rpb4

3.9e-04

48.94

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Query:  QLAEFELCVLGNLCPETVEEAISMVPSLKTKGRAHDDEAIEKMLNDL
        +L +FEL  LGNLCPE  EEA +++PSL  +GR  +DE + ++L+D+
Subjt:  QLAEFELCVLGNLCPETVEEAISMVPSLKTKGRAHDDEAIEKMLNDL

Arabidopsis top hits

e value

%identity

Alignment

AT4G15950.1 RNA polymerase II, Rpb4, core protein

4.7e-05

37.5

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Query:  TYQLAEFELCVLGNLCPETVEEAISMVPSLKTKGRAHDDEAIEKMLNDLSLIKKFE
        TY +++ E+CV+ N   E+V+E ++ +PSLKTK +   ++ ++  L +LS +KK E
Subjt:  TYQLAEFELCVLGNLCPETVEEAISMVPSLKTKGRAHDDEAIEKMLNDLSLIKKFE

AT5G09920.1 RNA polymerase II, Rpb4, core protein

1.3e-23

89.09

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Query:  YQLAEFELCVLGNLCPETVEEAISMVPSLKTKGRAHDDEAIEKMLNDLSLIKKFE
        +QL EFELCVLGNLCPETVEEA++MVPSLKTKGRAHDDEAIEKMLNDLSL+K+FE
Subjt:  YQLAEFELCVLGNLCPETVEEAISMVPSLKTKGRAHDDEAIEKMLNDLSLIKKFE

Sequences

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CDS sequence

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mRNA sequence

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ATGATCCACTACTTTGATATTTCATTCATGACTTTTATCACGTATCAGTTGGCTGAGTTTGAGCTCTGTGTTCTTGGCAACCTTTGCCCTGAAACTGTGGAGGAAGCTAT
TTCCATGGTTCCATCATTGAAGACTAAAGGAAGGGCACATGACGATGAAGCAATCGAGAAGATGTTGAACGATCTTTCATTAATCAAAAAGTTCGAGTAGTTAGCTCTCT
AAATCTGGGTTCAATGTGTTAATCCATTCCTTGGCATTTCTCACCTAAAACAATAGAGAATTGTACCCTTCTAATCAGAGTCTAATAACAAGTTTTTAGGCATTTACCTA
AACGTTCAATTTTATTGCTTATAGATTGCTAATACTCTGTTCGATGACTATGCTATTAGACATTTTTTGAAGTTAAGAGACCCGATACCTGATAACCATATAACCAAAAC
TACATGGATTGAACTTATTTCCATCTCTCATCTCAAAAATAAGTTAAATAAAGTGGTATGGACATCAGAAAG

Protein sequence

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MIHYFDISFMTFITYQLAEFELCVLGNLCPETVEEAISMVPSLKTKGRAHDDEAIEKMLNDLSLIKKFE

CmoCh15G002010 (gene) of Cucurbita moschata (Rifu) v1 genome