CuGenDBv2

Gene ID	Spg019659
Organism	Luffa cylindrica (Sponge gourd (cylindrica) v1)
Description	DNA-directed RNA polymerase II subunit 4
Genome location	scaffold5:35641064..35641861
RNA-Seq Expression	Spg019659
Synteny	Spg019659
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]

3.8e-22

94.92

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Query:  ILSRYQLAEFELCVLGNLCPETVEEAIAMVPSLKIKGRAHDDEAIKKMLNDLSLIKKFE
        ILSRYQLAEFELCVLGNLCPETVEEAIAMVPS+K KGRAHDDEAI+KMLNDLSLIKKFE
Subjt:  ILSRYQLAEFELCVLGNLCPETVEEAIAMVPSLKIKGRAHDDEAIKKMLNDLSLIKKFE

KAG8649808.1 hypothetical protein MANES_08G141900v8 [Manihot esculenta]

3.8e-22

94.92

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Query:  ILSRYQLAEFELCVLGNLCPETVEEAIAMVPSLKIKGRAHDDEAIKKMLNDLSLIKKFE
        ILSRYQLAEFELCVLGNLCPETVEEAIAMVPS+K KGRAHDDEAI+KMLNDLSLIKKFE
Subjt:  ILSRYQLAEFELCVLGNLCPETVEEAIAMVPSLKIKGRAHDDEAIKKMLNDLSLIKKFE

KDO37892.1 hypothetical protein CISIN_1g0424881mg, partial [Citrus sinensis]

2.2e-22

93.33

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Query:  RILSRYQLAEFELCVLGNLCPETVEEAIAMVPSLKIKGRAHDDEAIKKMLNDLSLIKKFE
        RILSRYQLAEFELCVLGNLCPETVEEAIAMVPS+K +GRAHDDEAI+KMLNDLSLIKKFE
Subjt:  RILSRYQLAEFELCVLGNLCPETVEEAIAMVPSLKIKGRAHDDEAIKKMLNDLSLIKKFE

KDP23744.1 hypothetical protein JCGZ_23577 [Jatropha curcas]

3.8e-22

94.92

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Query:  ILSRYQLAEFELCVLGNLCPETVEEAIAMVPSLKIKGRAHDDEAIKKMLNDLSLIKKFE
        ILSRYQLAEFELCVLGNLCPETVEEAIAMVPS+K KGRAHDDEAI+KMLNDLSLIKKFE
Subjt:  ILSRYQLAEFELCVLGNLCPETVEEAIAMVPSLKIKGRAHDDEAIKKMLNDLSLIKKFE

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

2.2e-22

96.61

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Query:  ILSRYQLAEFELCVLGNLCPETVEEAIAMVPSLKIKGRAHDDEAIKKMLNDLSLIKKFE
        ILSRYQLAEFELCVLGNLCPETVEEAIAMVPSLK KGRAHDDEAI+KMLNDLSLIKKFE
Subjt:  ILSRYQLAEFELCVLGNLCPETVEEAIAMVPSLKIKGRAHDDEAIKKMLNDLSLIKKFE

TrEMBL top hits

e value

%identity

Alignment

A0A067DFT4 Uncharacterized protein (Fragment)

1.1e-22

93.33

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Query:  RILSRYQLAEFELCVLGNLCPETVEEAIAMVPSLKIKGRAHDDEAIKKMLNDLSLIKKFE
        RILSRYQLAEFELCVLGNLCPETVEEAIAMVPS+K +GRAHDDEAI+KMLNDLSLIKKFE
Subjt:  RILSRYQLAEFELCVLGNLCPETVEEAIAMVPSLKIKGRAHDDEAIKKMLNDLSLIKKFE

A0A251KNA5 RPOL4c domain-containing protein

1.8e-22

94.92

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Query:  ILSRYQLAEFELCVLGNLCPETVEEAIAMVPSLKIKGRAHDDEAIKKMLNDLSLIKKFE
        ILSRYQLAEFELCVLGNLCPETVEEAIAMVPS+K KGRAHDDEAI+KMLNDLSLIKKFE
Subjt:  ILSRYQLAEFELCVLGNLCPETVEEAIAMVPSLKIKGRAHDDEAIKKMLNDLSLIKKFE

A0A6J1BWW4 DNA-directed RNA polymerase II subunit 4

1.1e-22

96.61

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Query:  ILSRYQLAEFELCVLGNLCPETVEEAIAMVPSLKIKGRAHDDEAIKKMLNDLSLIKKFE
        ILSRYQLAEFELCVLGNLCPETVEEAIAMVPSLK KGRAHDDEAI+KMLNDLSLIKKFE
Subjt:  ILSRYQLAEFELCVLGNLCPETVEEAIAMVPSLKIKGRAHDDEAIKKMLNDLSLIKKFE

A5APH2 RPOL4c domain-containing protein

1.8e-22

94.92

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Query:  ILSRYQLAEFELCVLGNLCPETVEEAIAMVPSLKIKGRAHDDEAIKKMLNDLSLIKKFE
        ILSRYQLAEFELCVLGNLCPETVEEAIAMVPS+K KGRAHDDEAI+KMLNDLSLIKKFE
Subjt:  ILSRYQLAEFELCVLGNLCPETVEEAIAMVPSLKIKGRAHDDEAIKKMLNDLSLIKKFE

B9H5K4 RPOL4c domain-containing protein

1.8e-22

94.92

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Query:  ILSRYQLAEFELCVLGNLCPETVEEAIAMVPSLKIKGRAHDDEAIKKMLNDLSLIKKFE
        ILSRYQLAEFELCVLGNLCPETVEEAIAMVPS+K KGRAHDDEAI+KMLNDLSLIKKFE
Subjt:  ILSRYQLAEFELCVLGNLCPETVEEAIAMVPSLKIKGRAHDDEAIKKMLNDLSLIKKFE

SwissProt top hits

e value

%identity

Alignment

O15514 DNA-directed RNA polymerase II subunit RPB4

2.6e-05

42.37

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

O48890 DNA-directed RNA polymerase II subunit 4

1.2e-23

88.14

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Query:  ILSRYQLAEFELCVLGNLCPETVEEAIAMVPSLKIKGRAHDDEAIKKMLNDLSLIKKFE
        ILSR+QL EFELCVLGNLCPETVEEA+AMVPSLK KGRAHDDEAI+KMLNDLSL+K+FE
Subjt:  ILSRYQLAEFELCVLGNLCPETVEEAIAMVPSLKIKGRAHDDEAIKKMLNDLSLIKKFE

Q54S04 DNA-directed RNA polymerase II subunit rpb4

2.0e-05

45.61

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Query:  LSRYQLAEFELCVLGNLCPETVEEAIAMVPSLKIKGRAHDDEAIKKMLNDLSLIKKF
        LS+  L EFE+  L NLCPE  +EA +++PSLK   +  DDE ++ +L++LS ++KF
Subjt:  LSRYQLAEFELCVLGNLCPETVEEAIAMVPSLKIKGRAHDDEAIKKMLNDLSLIKKF

Q9D7M8 DNA-directed RNA polymerase II subunit RPB4

2.6e-05

42.37

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

Q9VEA5 DNA-directed RNA polymerase II subunit Rpb4

3.3e-05

48.08

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

Arabidopsis top hits

e value

%identity

Alignment

AT4G15950.1 RNA polymerase II, Rpb4, core protein

1.7e-04

36.21

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Query:  LSRYQLAEFELCVLGNLCPETVEEAIAMVPSLKIKGRAHDDEAIKKMLNDLSLIKKFE
        L  Y +++ E+CV+ N   E+V+E +A +PSLK K +   ++ ++  L +LS +KK E
Subjt:  LSRYQLAEFELCVLGNLCPETVEEAIAMVPSLKIKGRAHDDEAIKKMLNDLSLIKKFE

AT5G09920.1 RNA polymerase II, Rpb4, core protein

8.7e-25

88.14

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Query:  ILSRYQLAEFELCVLGNLCPETVEEAIAMVPSLKIKGRAHDDEAIKKMLNDLSLIKKFE
        ILSR+QL EFELCVLGNLCPETVEEA+AMVPSLK KGRAHDDEAI+KMLNDLSL+K+FE
Subjt:  ILSRYQLAEFELCVLGNLCPETVEEAIAMVPSLKIKGRAHDDEAIKKMLNDLSLIKKFE

Sequences

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CDS sequence

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ATGGATATAGGCTTTCCTAGAATTCTAAGCAGATATCAGTTGGCCGAGTTTGAGCTCTGTGTTCTTGGCAACCTTTGCCCTGAAACTGTGGAGGAAGCTATTGCCATGGT
TCCATCTTTGAAGATTAAAGGGAGGGCGCATGATGATGAAGCAATCAAGAAGATGTTGAATGACCTCTCGTTAATCAAAAAGTTTGAGTAG

mRNA sequence

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Protein sequence

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MDIGFPRILSRYQLAEFELCVLGNLCPETVEEAIAMVPSLKIKGRAHDDEAIKKMLNDLSLIKKFE

Spg019659 (gene) of Sponge gourd (cylindrica) v1 genome