CuGenDBv2

Gene ID	PI0007043
Organism	Cucumis metuliferus PI 482460 (Melon (PI 482460) v1)
Description	DNA-directed RNA polymerase II subunit 4-like
Genome location	chr09:20608642..20613161
RNA-Seq Expression	PI0007043
Synteny	PI0007043
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

XP_004141497.1 DNA-directed RNA polymerase II subunit 4 [Cucumis sativus]

1.1e-68

99.28

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Query:  MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQRAEDPTNQVSQVFEKSLQYVKRFSRYKNPDAVRQVREILSRYQLAEFELCVLGNLCPE
        MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQRAEDPTNQVSQVFEKSLQYVKRFSRYKNPDAVRQVREILSRYQLAEFELCVLGNLCPE
Subjt:  MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQRAEDPTNQVSQVFEKSLQYVKRFSRYKNPDAVRQVREILSRYQLAEFELCVLGNLCPE

Query:  TVEEATSIVPSLKTKGRVHDDEAIEKMLNDLSLIKKFE
        TVEEATSIVPSLKTKGRVH+DEAIEKMLNDLSLIKKFE
Subjt:  TVEEATSIVPSLKTKGRVHDDEAIEKMLNDLSLIKKFE

XP_008459458.1 PREDICTED: DNA-directed RNA polymerase II subunit 4-like [Cucumis melo]

4.8e-69

99.28

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Query:  MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQRAEDPTNQVSQVFEKSLQYVKRFSRYKNPDAVRQVREILSRYQLAEFELCVLGNLCPE
        MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQRAEDPTNQ+SQVFEKSLQYVKRFSRYKNPDAVRQVREILSRYQLAEFELCVLGNLCPE
Subjt:  MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQRAEDPTNQVSQVFEKSLQYVKRFSRYKNPDAVRQVREILSRYQLAEFELCVLGNLCPE

Query:  TVEEATSIVPSLKTKGRVHDDEAIEKMLNDLSLIKKFE
        TVEEATSIVPSLKTKGRVHDDEAIEKMLNDLSLIKKFE
Subjt:  TVEEATSIVPSLKTKGRVHDDEAIEKMLNDLSLIKKFE

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

1.3e-66

96.38

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Query:  MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQRAEDPTNQVSQVFEKSLQYVKRFSRYKNPDAVRQVREILSRYQLAEFELCVLGNLCPE
        MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQ +EDPTNQVSQVFEKSLQYVKRFSRYKNPDAVRQVREILSRYQLAEFELCVLGNLCPE
Subjt:  MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQRAEDPTNQVSQVFEKSLQYVKRFSRYKNPDAVRQVREILSRYQLAEFELCVLGNLCPE

Query:  TVEEATSIVPSLKTKGRVHDDEAIEKMLNDLSLIKKFE
        TVEEA S+VPSLKTKGR HDDEAIEKMLNDLSLIKKFE
Subjt:  TVEEATSIVPSLKTKGRVHDDEAIEKMLNDLSLIKKFE

XP_038884885.1 DNA-directed RNA polymerase II subunit 4 [Benincasa hispida]

2.2e-66

95.65

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Query:  MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQRAEDPTNQVSQVFEKSLQYVKRFSRYKNPDAVRQVREILSRYQLAEFELCVLGNLCPE
        MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQ +EDPTNQVSQVFEKSLQYVKRFSRYKNPDAVRQVREILSRYQLAEFELCVLGNLCPE
Subjt:  MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQRAEDPTNQVSQVFEKSLQYVKRFSRYKNPDAVRQVREILSRYQLAEFELCVLGNLCPE

Query:  TVEEATSIVPSLKTKGRVHDDEAIEKMLNDLSLIKKFE
        TVEEA ++VPSLKTKGRVHDDEAIEKMLNDLSLIK+FE
Subjt:  TVEEATSIVPSLKTKGRVHDDEAIEKMLNDLSLIKKFE

XP_038890773.1 DNA-directed RNA polymerase II subunit 4-like [Benincasa hispida]

2.4e-68

98.55

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Query:  MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQRAEDPTNQVSQVFEKSLQYVKRFSRYKNPDAVRQVREILSRYQLAEFELCVLGNLCPE
        MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQRAEDPTNQVSQVFEKSLQYVKRFSRYKNPDAVRQVREILSRYQLAEFELCVLGNLCPE
Subjt:  MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQRAEDPTNQVSQVFEKSLQYVKRFSRYKNPDAVRQVREILSRYQLAEFELCVLGNLCPE

Query:  TVEEATSIVPSLKTKGRVHDDEAIEKMLNDLSLIKKFE
        TVEEA S+VPSLKTKGRVHDDEAIEKMLNDLSLIKKFE
Subjt:  TVEEATSIVPSLKTKGRVHDDEAIEKMLNDLSLIKKFE

TrEMBL top hits

e value

%identity

Alignment

A0A1S3CA78 DNA-directed RNA polymerase II subunit 4-like

2.3e-69

99.28

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Query:  MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQRAEDPTNQVSQVFEKSLQYVKRFSRYKNPDAVRQVREILSRYQLAEFELCVLGNLCPE
        MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQRAEDPTNQ+SQVFEKSLQYVKRFSRYKNPDAVRQVREILSRYQLAEFELCVLGNLCPE
Subjt:  MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQRAEDPTNQVSQVFEKSLQYVKRFSRYKNPDAVRQVREILSRYQLAEFELCVLGNLCPE

Query:  TVEEATSIVPSLKTKGRVHDDEAIEKMLNDLSLIKKFE
        TVEEATSIVPSLKTKGRVHDDEAIEKMLNDLSLIKKFE
Subjt:  TVEEATSIVPSLKTKGRVHDDEAIEKMLNDLSLIKKFE

A0A5A7T811 DNA-directed RNA polymerase II subunit 4-like

2.3e-69

99.28

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Query:  MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQRAEDPTNQVSQVFEKSLQYVKRFSRYKNPDAVRQVREILSRYQLAEFELCVLGNLCPE
        MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQRAEDPTNQ+SQVFEKSLQYVKRFSRYKNPDAVRQVREILSRYQLAEFELCVLGNLCPE
Subjt:  MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQRAEDPTNQVSQVFEKSLQYVKRFSRYKNPDAVRQVREILSRYQLAEFELCVLGNLCPE

Query:  TVEEATSIVPSLKTKGRVHDDEAIEKMLNDLSLIKKFE
        TVEEATSIVPSLKTKGRVHDDEAIEKMLNDLSLIKKFE
Subjt:  TVEEATSIVPSLKTKGRVHDDEAIEKMLNDLSLIKKFE

A0A5D3C019 DNA-directed RNA polymerase II subunit 4

1.4e-66

94.93

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Query:  MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQRAEDPTNQVSQVFEKSLQYVKRFSRYKNPDAVRQVREILSRYQLAEFELCVLGNLCPE
        MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQ +EDPTNQVSQVFEKSLQYVKRFSRYKNPDAVRQVRE+LSRYQLAEFELCVLGNLCPE
Subjt:  MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQRAEDPTNQVSQVFEKSLQYVKRFSRYKNPDAVRQVREILSRYQLAEFELCVLGNLCPE

Query:  TVEEATSIVPSLKTKGRVHDDEAIEKMLNDLSLIKKFE
        TVEEA ++VPSLKTKGRVHDDEAIEKMLNDLSLIK+FE
Subjt:  TVEEATSIVPSLKTKGRVHDDEAIEKMLNDLSLIKKFE

A0A6J1FFS7 DNA-directed RNA polymerase II subunit 4-like

6.3e-67

96.38

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Query:  MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQRAEDPTNQVSQVFEKSLQYVKRFSRYKNPDAVRQVREILSRYQLAEFELCVLGNLCPE
        MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQ +EDPTNQVSQVFEKSLQYVKRFSRYKNPDAVRQVREILSRYQLAEFELCVLGNLCPE
Subjt:  MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQRAEDPTNQVSQVFEKSLQYVKRFSRYKNPDAVRQVREILSRYQLAEFELCVLGNLCPE

Query:  TVEEATSIVPSLKTKGRVHDDEAIEKMLNDLSLIKKFE
        TVEEA S+VPSLKTKGR HDDEAIEKMLNDLSLIKKFE
Subjt:  TVEEATSIVPSLKTKGRVHDDEAIEKMLNDLSLIKKFE

A0A6J1JVN3 DNA-directed RNA polymerase II subunit 4-like

6.3e-67

96.38

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Query:  MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQRAEDPTNQVSQVFEKSLQYVKRFSRYKNPDAVRQVREILSRYQLAEFELCVLGNLCPE
        MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQ +EDPTNQVSQVFEKSLQYVKRFSRYKNPDAVRQVREILSRYQLAEFELCVLGNLCPE
Subjt:  MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQRAEDPTNQVSQVFEKSLQYVKRFSRYKNPDAVRQVREILSRYQLAEFELCVLGNLCPE

Query:  TVEEATSIVPSLKTKGRVHDDEAIEKMLNDLSLIKKFE
        TVEEA S+VPSLKTKGR HDDEAIEKMLNDLSLIKKFE
Subjt:  TVEEATSIVPSLKTKGRVHDDEAIEKMLNDLSLIKKFE

SwissProt top hits

e value

%identity

Alignment

O15514 DNA-directed RNA polymerase II subunit RPB4

1.0e-21

41.61

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

Query:  VEEATSIVPSLKTKGRVHDDEAIEKMLNDLSLIKKFE
         EE+ +++PSL  +GR  D+E ++++L+D+   + F+
Subjt:  VEEATSIVPSLKTKGRVHDDEAIEKMLNDLSLIKKFE

O48890 DNA-directed RNA polymerase II subunit 4

2.3e-66

91.3

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Query:  MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQRAEDPTNQVSQVFEKSLQYVKRFSRYKNPDAVRQVREILSRYQLAEFELCVLGNLCPE
        MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHK+EQLQQ +EDP NQVSQVFEKSLQYVKRFSRYKNPDAVRQVREILSR+QL EFELCVLGNLCPE
Subjt:  MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQRAEDPTNQVSQVFEKSLQYVKRFSRYKNPDAVRQVREILSRYQLAEFELCVLGNLCPE

Query:  TVEEATSIVPSLKTKGRVHDDEAIEKMLNDLSLIKKFE
        TVEEA ++VPSLKTKGR HDDEAIEKMLNDLSL+K+FE
Subjt:  TVEEATSIVPSLKTKGRVHDDEAIEKMLNDLSLIKKFE

Q54S04 DNA-directed RNA polymerase II subunit rpb4

2.8e-19

37.41

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Query:  EEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQRAED-------------PTNQVSQVFEKSLQYVKRFSRYKNPDAVRQVREILSRYQLAEFE
        +EEE+   LK   +   AK L+N EV+++LEH+    +    +               N + + F K+L Y ++FSRYKN  +++QVR  LS+  L EFE
Subjt:  EEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQRAED-------------PTNQVSQVFEKSLQYVKRFSRYKNPDAVRQVREILSRYQLAEFE

Query:  LCVLGNLCPETVEEATSIVPSLKTKGRVHDDEAIEKMLNDLSLIKKF
        +  L NLCPE  +EA S++PSLK   ++ DDE ++ +L++LS ++KF
Subjt:  LCVLGNLCPETVEEATSIVPSLKTKGRVHDDEAIEKMLNDLSLIKKF

Q9D7M8 DNA-directed RNA polymerase II subunit RPB4

1.0e-21

41.61

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

Query:  VEEATSIVPSLKTKGRVHDDEAIEKMLNDLSLIKKFE
         EE+ +++PSL  +GR  D+E ++++L+D+   + F+
Subjt:  VEEATSIVPSLKTKGRVHDDEAIEKMLNDLSLIKKFE

Q9VEA5 DNA-directed RNA polymerase II subunit Rpb4

9.8e-17

37.3

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

Query:  TSIVPSLKTKGRVHDDEAIEKMLNDL
         +++PSL  +GR  D+E + ++L+D+
Subjt:  TSIVPSLKTKGRVHDDEAIEKMLNDL

Arabidopsis top hits

e value

%identity

Alignment

AT4G15950.1 RNA polymerase II, Rpb4, core protein

2.9e-16

35.42

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Query:  KSLTRSMSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQRAEDPTNQVSQVFEKSLQYVKRFSRYKNPDAVRQVREILSRYQLAEFELCVL
        KS   + S +   ++ ELK   E   A+C+M+CE   IL+    QL   +EDP+ ++   ++++L YV+    Y NP +VR+V E L  Y +++ E+CV+
Subjt:  KSLTRSMSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQRAEDPTNQVSQVFEKSLQYVKRFSRYKNPDAVRQVREILSRYQLAEFELCVL

Query:  GNLCPETVEEATSIVPSLKTKGRVHDDEAIEKMLNDLSLIKKFE
         N   E+V+E  + +PSLKTK  V  ++ ++  L +LS +KK E
Subjt:  GNLCPETVEEATSIVPSLKTKGRVHDDEAIEKMLNDLSLIKKFE

AT5G09920.1 RNA polymerase II, Rpb4, core protein

1.6e-67

91.3

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Query:  MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQRAEDPTNQVSQVFEKSLQYVKRFSRYKNPDAVRQVREILSRYQLAEFELCVLGNLCPE
        MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHK+EQLQQ +EDP NQVSQVFEKSLQYVKRFSRYKNPDAVRQVREILSR+QL EFELCVLGNLCPE
Subjt:  MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQRAEDPTNQVSQVFEKSLQYVKRFSRYKNPDAVRQVREILSRYQLAEFELCVLGNLCPE

Query:  TVEEATSIVPSLKTKGRVHDDEAIEKMLNDLSLIKKFE
        TVEEA ++VPSLKTKGR HDDEAIEKMLNDLSL+K+FE
Subjt:  TVEEATSIVPSLKTKGRVHDDEAIEKMLNDLSLIKKFE

Sequences

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CDS sequence

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ATGTGTTATAGTATCATTCATTTAAGGTTGACTTATGTTGGACCTTTGGCCCCCAAATTTTTATCACAAGCTCGGCCTCATGTATGGCCAAAGCCGATCAGGCCCATGCT
CTTCCTTGATCCATTATTTCGTTTTCTCTCGTTATCCTATTCTACCCTTGTTGAAAACGAAGAAGCTGCCTCTGATTTTGCCGTCACGTTTCGCCGTCAGCCGGATCTCT
GCGTTTTGTGGTTGGACAAATCTTTAACTCGAAGCATGTCTGGAGAAGAGGAAGAAAATGCCGCAGAGCTTAAAATTGGGGATGAGTTCTTAAAAGCTAAGTGTTTAATG
AATTGTGAAGTTTCCTTGATCCTGGAACACAAGTATGAGCAGCTTCAACAAAGGGCTGAGGATCCAACAAATCAAGTTTCTCAAGTGTTTGAAAAGTCACTGCAGTATGT
GAAACGTTTCAGTCGCTATAAGAACCCCGATGCTGTTAGACAAGTCCGAGAAATTCTAAGCAGATATCAACTAGCTGAGTTCGAGTTATGTGTTCTTGGCAACCTTTGCC
CTGAAACTGTGGAGGAAGCTACTTCCATAGTTCCATCTTTGAAGACTAAAGGAAGAGTGCATGACGACGAAGCAATAGAGAAGATGTTGAATGATCTTTCATTAATCAAA
AAGTTTGAGTAA

mRNA sequence

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Protein sequence

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MCYSIIHLRLTYVGPLAPKFLSQARPHVWPKPIRPMLFLDPLFRFLSLSYSTLVENEEAASDFAVTFRRQPDLCVLWLDKSLTRSMSGEEEENAAELKIGDEFLKAKCLM
NCEVSLILEHKYEQLQQRAEDPTNQVSQVFEKSLQYVKRFSRYKNPDAVRQVREILSRYQLAEFELCVLGNLCPETVEEATSIVPSLKTKGRVHDDEAIEKMLNDLSLIK
KFE

PI0007043 (gene) of Melon (PI 482460) v1 genome