CuGenDBv2

Gene ID	Spg039594
Organism	Luffa cylindrica (Sponge gourd (cylindrica) v1)
Description	DNA-directed RNA polymerase II subunit 4
Genome location	scaffold10:45450774..45456304
RNA-Seq Expression	Spg039594
Synteny	Spg039594
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

Show/hide homology

GenBank top hits

e value

%identity

Alignment

KAF2287510.1 hypothetical protein GH714_001039 [Hevea brasiliensis]

4.3e-68

97.84

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Query:  SMSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQMSEDPMNQVSQVFEKSLQYVKRFSRYKNPDAVRQVREILSRYQLAEFELCVLGNLCP
        SMSGEEEENAAELKIGDEFLKAKCLMNCEV+LILEHKYEQLQQMS+DPMNQVSQVFEKSLQYVKRFSRYKNPDAVRQVREILSRYQLAEFELCVLGNLCP
Subjt:  SMSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQMSEDPMNQVSQVFEKSLQYVKRFSRYKNPDAVRQVREILSRYQLAEFELCVLGNLCP

Query:  ETVEEAIAMVPSLKTKGRAHDDEAIEKMLNDLSLIKKFE
        ETVEEAIAMVPS+KTKGRAHDDEAIEKMLNDLSLIKKFE
Subjt:  ETVEEAIAMVPSLKTKGRAHDDEAIEKMLNDLSLIKKFE

KAF3440471.1 hypothetical protein FNV43_RR18755 [Rhamnella rubrinervis]

7.3e-68

98.55

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Query:  MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQMSEDPMNQVSQVFEKSLQYVKRFSRYKNPDAVRQVREILSRYQLAEFELCVLGNLCPE
        MSGEEEENAAELKIG+EFLKAKCLMNCEVSLILEHKYEQLQQMSEDPMNQVSQVFEKSLQYVKRFSRYKNPDAVRQVREILSRYQLAEFELCVLGNLCPE
Subjt:  MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQMSEDPMNQVSQVFEKSLQYVKRFSRYKNPDAVRQVREILSRYQLAEFELCVLGNLCPE

Query:  TVEEAIAMVPSLKTKGRAHDDEAIEKMLNDLSLIKKFE
        TVEEAIAMVPS+KTKGRAHDDEAIEKMLNDLSLIKKFE
Subjt:  TVEEAIAMVPSLKTKGRAHDDEAIEKMLNDLSLIKKFE

KAG8649808.1 hypothetical protein MANES_08G141900v8 [Manihot esculenta]

2.5e-68

96.48

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Query:  STSSMSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQMSEDPMNQVSQVFEKSLQYVKRFSRYKNPDAVRQVREILSRYQLAEFELCVLGN
        S  SMSGEEEENAAELKIGDEFLKAKCLMNCEV+LILEHKYEQLQQMS+DPMNQVSQVFEKSLQYVKRFSRYKNPDAVRQVREILSRYQLAEFELCVLGN
Subjt:  STSSMSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQMSEDPMNQVSQVFEKSLQYVKRFSRYKNPDAVRQVREILSRYQLAEFELCVLGN

Query:  LCPETVEEAIAMVPSLKTKGRAHDDEAIEKMLNDLSLIKKFE
        LCPETVEEAIAMVPS+KTKGRAHDDEAIEKMLNDLSLIKKFE
Subjt:  LCPETVEEAIAMVPSLKTKGRAHDDEAIEKMLNDLSLIKKFE

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

1.5e-68

100

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Query:  MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQMSEDPMNQVSQVFEKSLQYVKRFSRYKNPDAVRQVREILSRYQLAEFELCVLGNLCPE
        MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQMSEDPMNQVSQVFEKSLQYVKRFSRYKNPDAVRQVREILSRYQLAEFELCVLGNLCPE
Subjt:  MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQMSEDPMNQVSQVFEKSLQYVKRFSRYKNPDAVRQVREILSRYQLAEFELCVLGNLCPE

Query:  TVEEAIAMVPSLKTKGRAHDDEAIEKMLNDLSLIKKFE
        TVEEAIAMVPSLKTKGRAHDDEAIEKMLNDLSLIKKFE
Subjt:  TVEEAIAMVPSLKTKGRAHDDEAIEKMLNDLSLIKKFE

XP_030924038.1 DNA-directed RNA polymerase II subunit 4 [Quercus lobata]

5.6e-68

98.55

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Query:  MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQMSEDPMNQVSQVFEKSLQYVKRFSRYKNPDAVRQVREILSRYQLAEFELCVLGNLCPE
        MSGEEEENAAELKIGDEFLKAKCLMNCEV+LILEHKYEQLQQMSEDPMNQVSQVFEKSLQYVKRFSRYKNPDAVRQVREILSRYQLAEFELCVLGNLCPE
Subjt:  MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQMSEDPMNQVSQVFEKSLQYVKRFSRYKNPDAVRQVREILSRYQLAEFELCVLGNLCPE

Query:  TVEEAIAMVPSLKTKGRAHDDEAIEKMLNDLSLIKKFE
        TVEEAIAMVPS+KTKGRAHDDEAIEKMLNDLSLIKKFE
Subjt:  TVEEAIAMVPSLKTKGRAHDDEAIEKMLNDLSLIKKFE

TrEMBL top hits

e value

%identity

Alignment

A0A2C9VG74 RPOL4c domain-containing protein

1.2e-68

96.48

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Query:  STSSMSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQMSEDPMNQVSQVFEKSLQYVKRFSRYKNPDAVRQVREILSRYQLAEFELCVLGN
        S  SMSGEEEENAAELKIGDEFLKAKCLMNCEV+LILEHKYEQLQQMS+DPMNQVSQVFEKSLQYVKRFSRYKNPDAVRQVREILSRYQLAEFELCVLGN
Subjt:  STSSMSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQMSEDPMNQVSQVFEKSLQYVKRFSRYKNPDAVRQVREILSRYQLAEFELCVLGN

Query:  LCPETVEEAIAMVPSLKTKGRAHDDEAIEKMLNDLSLIKKFE
        LCPETVEEAIAMVPS+KTKGRAHDDEAIEKMLNDLSLIKKFE
Subjt:  LCPETVEEAIAMVPSLKTKGRAHDDEAIEKMLNDLSLIKKFE

A0A2N9G2U2 RPOL4c domain-containing protein

2.7e-68

98.55

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Query:  MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQMSEDPMNQVSQVFEKSLQYVKRFSRYKNPDAVRQVREILSRYQLAEFELCVLGNLCPE
        MSGEEEENAAELKIGDEFLKAKCLMNCEV+LILEHKYEQLQQMSEDPMNQVSQVFEKSLQYVKRFSRYKNPDAVRQVREILSRYQLAEFELCVLGNLCPE
Subjt:  MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQMSEDPMNQVSQVFEKSLQYVKRFSRYKNPDAVRQVREILSRYQLAEFELCVLGNLCPE

Query:  TVEEAIAMVPSLKTKGRAHDDEAIEKMLNDLSLIKKFE
        TVEEAIAMVPS+KTKGRAHDDEAIEKMLNDLSLIKKFE
Subjt:  TVEEAIAMVPSLKTKGRAHDDEAIEKMLNDLSLIKKFE

A0A6A1VC16 DNA-directed RNA polymerase II subunit 4

2.7e-68

98.55

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Query:  MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQMSEDPMNQVSQVFEKSLQYVKRFSRYKNPDAVRQVREILSRYQLAEFELCVLGNLCPE
        MSGEEEENAAELKIGDEFLKAKCLMNCEV+LILEHKYEQLQQMSEDPMNQVSQVFEKSLQYVKRFSRYKNPDAVRQVREILSRYQLAEFELCVLGNLCPE
Subjt:  MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQMSEDPMNQVSQVFEKSLQYVKRFSRYKNPDAVRQVREILSRYQLAEFELCVLGNLCPE

Query:  TVEEAIAMVPSLKTKGRAHDDEAIEKMLNDLSLIKKFE
        TVEEAIAMVPS+KTKGRAHDDEAIEKMLNDLSLIKKFE
Subjt:  TVEEAIAMVPSLKTKGRAHDDEAIEKMLNDLSLIKKFE

A0A6A6KF05 RPOL4c domain-containing protein

2.1e-68

97.84

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Query:  SMSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQMSEDPMNQVSQVFEKSLQYVKRFSRYKNPDAVRQVREILSRYQLAEFELCVLGNLCP
        SMSGEEEENAAELKIGDEFLKAKCLMNCEV+LILEHKYEQLQQMS+DPMNQVSQVFEKSLQYVKRFSRYKNPDAVRQVREILSRYQLAEFELCVLGNLCP
Subjt:  SMSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQMSEDPMNQVSQVFEKSLQYVKRFSRYKNPDAVRQVREILSRYQLAEFELCVLGNLCP

Query:  ETVEEAIAMVPSLKTKGRAHDDEAIEKMLNDLSLIKKFE
        ETVEEAIAMVPS+KTKGRAHDDEAIEKMLNDLSLIKKFE
Subjt:  ETVEEAIAMVPSLKTKGRAHDDEAIEKMLNDLSLIKKFE

A0A6J1BWW4 DNA-directed RNA polymerase II subunit 4

7.1e-69

100

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Query:  MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQMSEDPMNQVSQVFEKSLQYVKRFSRYKNPDAVRQVREILSRYQLAEFELCVLGNLCPE
        MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQMSEDPMNQVSQVFEKSLQYVKRFSRYKNPDAVRQVREILSRYQLAEFELCVLGNLCPE
Subjt:  MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQMSEDPMNQVSQVFEKSLQYVKRFSRYKNPDAVRQVREILSRYQLAEFELCVLGNLCPE

Query:  TVEEAIAMVPSLKTKGRAHDDEAIEKMLNDLSLIKKFE
        TVEEAIAMVPSLKTKGRAHDDEAIEKMLNDLSLIKKFE
Subjt:  TVEEAIAMVPSLKTKGRAHDDEAIEKMLNDLSLIKKFE

SwissProt top hits

e value

%identity

Alignment

O15514 DNA-directed RNA polymerase II subunit RPB4

7.0e-21

40.15

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Query:  SGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQMSEDPMNQVSQVFEKSLQYVKRFSRYKNPDAVRQVREILSRYQLAEFELCVLGNLCPET
        +G+ EE+A++L    EF  A+ L+N EV ++LEH+ +Q +   ++   ++S+VF K+L Y  RFSR+KN + +  VR +L + +L +FEL  L NLCPET
Subjt:  SGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQMSEDPMNQVSQVFEKSLQYVKRFSRYKNPDAVRQVREILSRYQLAEFELCVLGNLCPET

Query:  VEEAIAMVPSLKTKGRAHDDEAIEKMLNDLSLIKKFE
         EE+ A++PSL  +GR  +DE ++++L+D+   + F+
Subjt:  VEEAIAMVPSLKTKGRAHDDEAIEKMLNDLSLIKKFE

O48890 DNA-directed RNA polymerase II subunit 4

6.9e-69

94.93

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Query:  MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQMSEDPMNQVSQVFEKSLQYVKRFSRYKNPDAVRQVREILSRYQLAEFELCVLGNLCPE
        MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHK+EQLQQ+SEDPMNQVSQVFEKSLQYVKRFSRYKNPDAVRQVREILSR+QL EFELCVLGNLCPE
Subjt:  MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQMSEDPMNQVSQVFEKSLQYVKRFSRYKNPDAVRQVREILSRYQLAEFELCVLGNLCPE

Query:  TVEEAIAMVPSLKTKGRAHDDEAIEKMLNDLSLIKKFE
        TVEEA+AMVPSLKTKGRAHDDEAIEKMLNDLSL+K+FE
Subjt:  TVEEAIAMVPSLKTKGRAHDDEAIEKMLNDLSLIKKFE

Q54S04 DNA-directed RNA polymerase II subunit rpb4

2.5e-18

36.73

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Query:  EEEENAAELKIGDEFLKAKCLMNCEVSLILEHK----------YEQ---LQQMSEDPMNQVSQVFEKSLQYVKRFSRYKNPDAVRQVREILSRYQLAEFE
        +EEE+   LK   +   AK L+N EV+++LEH+          + Q   L  +  + +N + + F K+L Y ++FSRYKN  +++QVR  LS+  L EFE
Subjt:  EEEENAAELKIGDEFLKAKCLMNCEVSLILEHK----------YEQ---LQQMSEDPMNQVSQVFEKSLQYVKRFSRYKNPDAVRQVREILSRYQLAEFE

Query:  LCVLGNLCPETVEEAIAMVPSLKTKGRAHDDEAIEKMLNDLSLIKKF
        +  L NLCPE  +EA +++PSLK      +D+ ++ +L++LS ++KF
Subjt:  LCVLGNLCPETVEEAIAMVPSLKTKGRAHDDEAIEKMLNDLSLIKKF

Q9D7M8 DNA-directed RNA polymerase II subunit RPB4

7.0e-21

40.15

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Query:  SGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQMSEDPMNQVSQVFEKSLQYVKRFSRYKNPDAVRQVREILSRYQLAEFELCVLGNLCPET
        +G+ EE+A++L    EF  A+ L+N EV ++LEH+ +Q +   ++   ++S+VF K+L Y  RFSR+KN + +  VR +L + +L +FEL  L NLCPET
Subjt:  SGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQMSEDPMNQVSQVFEKSLQYVKRFSRYKNPDAVRQVREILSRYQLAEFELCVLGNLCPET

Query:  VEEAIAMVPSLKTKGRAHDDEAIEKMLNDLSLIKKFE
         EE+ A++PSL  +GR  +DE ++++L+D+   + F+
Subjt:  VEEAIAMVPSLKTKGRAHDDEAIEKMLNDLSLIKKFE

Q9VEA5 DNA-directed RNA polymerase II subunit Rpb4

3.0e-16

38.89

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Query:  EENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQMSEDPMNQVSQVFEKSLQYVKRFSRYKNPDAVRQVREILSRYQLAEFELCVLGNLCPETVEEA
        +E+AA+L+   EF  A+ L+  EV ++L+H+  + Q  S D   + S+VF K+  Y   F ++KN + +   R +L + +L +FEL  LGNLCPE  EEA
Subjt:  EENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQMSEDPMNQVSQVFEKSLQYVKRFSRYKNPDAVRQVREILSRYQLAEFELCVLGNLCPETVEEA

Query:  IAMVPSLKTKGRAHDDEAIEKMLNDL
         A++PSL  +GR  +DE + ++L+D+
Subjt:  IAMVPSLKTKGRAHDDEAIEKMLNDL

Arabidopsis top hits

e value

%identity

Alignment

AT4G15950.1 RNA polymerase II, Rpb4, core protein

1.4e-16

34.76

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Query:  KINNSSISQQ--RVRFFRLSKTSTSSMSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQMSEDPMNQVSQVFEKSLQYVKRFSRYKNPDAV
        KI N S  QQ  +    +  K+   + S +   ++ ELK   E   A+C+M+CE   IL+    QL  +SEDP  ++   ++++L YV+    Y NP +V
Subjt:  KINNSSISQQ--RVRFFRLSKTSTSSMSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQMSEDPMNQVSQVFEKSLQYVKRFSRYKNPDAV

Query:  RQVREILSRYQLAEFELCVLGNLCPETVEEAIAMVPSLKTKGRAHDDEAIEKMLNDLSLIKKFE
        R+V E L  Y +++ E+CV+ N   E+V+E +A +PSLKTK +   ++ ++  L +LS +KK E
Subjt:  RQVREILSRYQLAEFELCVLGNLCPETVEEAIAMVPSLKTKGRAHDDEAIEKMLNDLSLIKKFE

AT5G09920.1 RNA polymerase II, Rpb4, core protein

4.9e-70

94.93

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Query:  MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQMSEDPMNQVSQVFEKSLQYVKRFSRYKNPDAVRQVREILSRYQLAEFELCVLGNLCPE
        MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHK+EQLQQ+SEDPMNQVSQVFEKSLQYVKRFSRYKNPDAVRQVREILSR+QL EFELCVLGNLCPE
Subjt:  MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQMSEDPMNQVSQVFEKSLQYVKRFSRYKNPDAVRQVREILSRYQLAEFELCVLGNLCPE

Query:  TVEEAIAMVPSLKTKGRAHDDEAIEKMLNDLSLIKKFE
        TVEEA+AMVPSLKTKGRAHDDEAIEKMLNDLSL+K+FE
Subjt:  TVEEAIAMVPSLKTKGRAHDDEAIEKMLNDLSLIKKFE

Sequences

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CDS sequence

Show/hide CDS sequence

ATGCGATTATGGAGCCGAAATTTTCGAAGTAGAAAAAATCTCGAAATTCAGTTGAGAGGCGAAAACAATGCCGAATTACAAAAATCTTTCAAAATTCCCCTCAACTTCGG
CGTTATCACAGTTTTCAATCAGCACACCGCGCCCCTTTCTCCCTCTCTACTGCAACCGCACGCCGGCACGCCACCATCGTATTTTGTCGCAGCCGCACGGCTAGTTGCCT
GTCGCAAGATCAACAACTCTTCGATCTCTCAGCAACGAGTTCGATTCTTTAGGTTGTCCAAGACTTCAACTTCAAGCATGTCTGGTGAGGAGGAAGAAAATGCTGCAGAG
CTTAAAATTGGGGATGAGTTCTTAAAGGCCAAGTGTTTAATGAATTGTGAAGTTTCTTTGATCCTTGAACACAAATATGAGCAGCTCCAGCAGATGTCTGAGGATCCAAT
GAATCAAGTTTCTCAAGTGTTCGAAAAGTCACTGCAGTATGTGAAACGCTTCAGCCGCTATAAAAATCCTGATGCTGTTAGACAAGTGCGAGAAATTCTAAGCAGGTATC
AATTGGCCGAGTTTGAGCTCTGTGTTCTTGGCAACCTTTGCCCTGAAACTGTGGAGGAAGCTATTGCCATGGTTCCATCTTTGAAGACTAAAGGGAGGGCGCATGATGAT
GAAGCAATCGAGAAGATGTTGAATGATCTCTCGTTAATCAAAAAGTTTGAGTAG

mRNA sequence

Show/hide mRNA sequence

Protein sequence

Show/hide protein sequence

MRLWSRNFRSRKNLEIQLRGENNAELQKSFKIPLNFGVITVFNQHTAPLSPSLLQPHAGTPPSYFVAAARLVACRKINNSSISQQRVRFFRLSKTSTSSMSGEEEENAAE
LKIGDEFLKAKCLMNCEVSLILEHKYEQLQQMSEDPMNQVSQVFEKSLQYVKRFSRYKNPDAVRQVREILSRYQLAEFELCVLGNLCPETVEEAIAMVPSLKTKGRAHDD
EAIEKMLNDLSLIKKFE

Spg039594 (gene) of Sponge gourd (cylindrica) v1 genome