CuGenDBv2

Gene ID	PI0019284
Organism	Cucumis metuliferus PI 482460 (Melon (PI 482460) v1)
Description	DNA-directed RNA polymerase II subunit 4
Genome location	chr03:24165770..24167961
RNA-Seq Expression	PI0019284
Synteny	PI0019284
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_004138390.1 DNA-directed RNA polymerase II subunit 4 [Cucumis sativus]

4.8e-67

100

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Query:  MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQMSEDPTNQVSQVFEKSLQYVKRFSRYKNPDAVRQVREVLSRYQLAEFELCVLGNLCPE
        MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQMSEDPTNQVSQVFEKSLQYVKRFSRYKNPDAVRQVREVLSRYQLAEFELCVLGNLCPE
Subjt:  MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQMSEDPTNQVSQVFEKSLQYVKRFSRYKNPDAVRQVREVLSRYQLAEFELCVLGNLCPE

Query:  TVEEAIAMVPSLKTKGRVHDDEAIEKMLNDLSLIK
        TVEEAIAMVPSLKTKGRVHDDEAIEKMLNDLSLIK
Subjt:  TVEEAIAMVPSLKTKGRVHDDEAIEKMLNDLSLIK

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

9.0e-66

97.78

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Query:  MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQMSEDPTNQVSQVFEKSLQYVKRFSRYKNPDAVRQVREVLSRYQLAEFELCVLGNLCPE
        MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQMSEDP NQVSQVFEKSLQYVKRFSRYKNPDAVRQVRE+LSRYQLAEFELCVLGNLCPE
Subjt:  MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQMSEDPTNQVSQVFEKSLQYVKRFSRYKNPDAVRQVREVLSRYQLAEFELCVLGNLCPE

Query:  TVEEAIAMVPSLKTKGRVHDDEAIEKMLNDLSLIK
        TVEEAIAMVPSLKTKGR HDDEAIEKMLNDLSLIK
Subjt:  TVEEAIAMVPSLKTKGRVHDDEAIEKMLNDLSLIK

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

4.0e-66

97.78

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Query:  MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQMSEDPTNQVSQVFEKSLQYVKRFSRYKNPDAVRQVREVLSRYQLAEFELCVLGNLCPE
        MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQMSEDPTNQVSQVFEKSLQYVKRFSRYKNPDAVRQVRE+LSRYQLAEFELCVLGNLCPE
Subjt:  MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQMSEDPTNQVSQVFEKSLQYVKRFSRYKNPDAVRQVREVLSRYQLAEFELCVLGNLCPE

Query:  TVEEAIAMVPSLKTKGRVHDDEAIEKMLNDLSLIK
        TVEEAI+MVPSLKTKGR HDDEAIEKMLNDLSLIK
Subjt:  TVEEAIAMVPSLKTKGRVHDDEAIEKMLNDLSLIK

XP_022954766.1 DNA-directed RNA polymerase II subunit 4 [Cucurbita moschata]

1.2e-65

97.78

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Query:  MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQMSEDPTNQVSQVFEKSLQYVKRFSRYKNPDAVRQVREVLSRYQLAEFELCVLGNLCPE
        MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQMSEDP NQVSQVFEKSLQYVKRFSRYKNPDAVRQVRE+LSRYQLAEFELCVLGNLCPE
Subjt:  MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQMSEDPTNQVSQVFEKSLQYVKRFSRYKNPDAVRQVREVLSRYQLAEFELCVLGNLCPE

Query:  TVEEAIAMVPSLKTKGRVHDDEAIEKMLNDLSLIK
        TVEEAIAMVPSLK KGRVHDDEAIEKMLNDLSLIK
Subjt:  TVEEAIAMVPSLKTKGRVHDDEAIEKMLNDLSLIK

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

6.2e-67

99.26

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Query:  MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQMSEDPTNQVSQVFEKSLQYVKRFSRYKNPDAVRQVREVLSRYQLAEFELCVLGNLCPE
        MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQMSEDPTNQVSQVFEKSLQYVKRFSRYKNPDAVRQVRE+LSRYQLAEFELCVLGNLCPE
Subjt:  MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQMSEDPTNQVSQVFEKSLQYVKRFSRYKNPDAVRQVREVLSRYQLAEFELCVLGNLCPE

Query:  TVEEAIAMVPSLKTKGRVHDDEAIEKMLNDLSLIK
        TVEEAIAMVPSLKTKGRVHDDEAIEKMLNDLSLIK
Subjt:  TVEEAIAMVPSLKTKGRVHDDEAIEKMLNDLSLIK

TrEMBL top hits

e value

%identity

Alignment

A0A0A0K7V5 RPOL4c domain-containing protein

2.3e-67

100

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Query:  MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQMSEDPTNQVSQVFEKSLQYVKRFSRYKNPDAVRQVREVLSRYQLAEFELCVLGNLCPE
        MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQMSEDPTNQVSQVFEKSLQYVKRFSRYKNPDAVRQVREVLSRYQLAEFELCVLGNLCPE
Subjt:  MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQMSEDPTNQVSQVFEKSLQYVKRFSRYKNPDAVRQVREVLSRYQLAEFELCVLGNLCPE

Query:  TVEEAIAMVPSLKTKGRVHDDEAIEKMLNDLSLIK
        TVEEAIAMVPSLKTKGRVHDDEAIEKMLNDLSLIK
Subjt:  TVEEAIAMVPSLKTKGRVHDDEAIEKMLNDLSLIK

A0A1S3C4R9 DNA-directed RNA polymerase II subunit 4

2.3e-67

100

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Query:  MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQMSEDPTNQVSQVFEKSLQYVKRFSRYKNPDAVRQVREVLSRYQLAEFELCVLGNLCPE
        MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQMSEDPTNQVSQVFEKSLQYVKRFSRYKNPDAVRQVREVLSRYQLAEFELCVLGNLCPE
Subjt:  MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQMSEDPTNQVSQVFEKSLQYVKRFSRYKNPDAVRQVREVLSRYQLAEFELCVLGNLCPE

Query:  TVEEAIAMVPSLKTKGRVHDDEAIEKMLNDLSLIK
        TVEEAIAMVPSLKTKGRVHDDEAIEKMLNDLSLIK
Subjt:  TVEEAIAMVPSLKTKGRVHDDEAIEKMLNDLSLIK

A0A5D3C019 DNA-directed RNA polymerase II subunit 4

2.3e-67

100

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Query:  MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQMSEDPTNQVSQVFEKSLQYVKRFSRYKNPDAVRQVREVLSRYQLAEFELCVLGNLCPE
        MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQMSEDPTNQVSQVFEKSLQYVKRFSRYKNPDAVRQVREVLSRYQLAEFELCVLGNLCPE
Subjt:  MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQMSEDPTNQVSQVFEKSLQYVKRFSRYKNPDAVRQVREVLSRYQLAEFELCVLGNLCPE

Query:  TVEEAIAMVPSLKTKGRVHDDEAIEKMLNDLSLIK
        TVEEAIAMVPSLKTKGRVHDDEAIEKMLNDLSLIK
Subjt:  TVEEAIAMVPSLKTKGRVHDDEAIEKMLNDLSLIK

A0A6J1FFS7 DNA-directed RNA polymerase II subunit 4-like

1.9e-66

97.78

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Query:  MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQMSEDPTNQVSQVFEKSLQYVKRFSRYKNPDAVRQVREVLSRYQLAEFELCVLGNLCPE
        MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQMSEDPTNQVSQVFEKSLQYVKRFSRYKNPDAVRQVRE+LSRYQLAEFELCVLGNLCPE
Subjt:  MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQMSEDPTNQVSQVFEKSLQYVKRFSRYKNPDAVRQVREVLSRYQLAEFELCVLGNLCPE

Query:  TVEEAIAMVPSLKTKGRVHDDEAIEKMLNDLSLIK
        TVEEAI+MVPSLKTKGR HDDEAIEKMLNDLSLIK
Subjt:  TVEEAIAMVPSLKTKGRVHDDEAIEKMLNDLSLIK

A0A6J1JVN3 DNA-directed RNA polymerase II subunit 4-like

1.9e-66

97.78

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Query:  MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQMSEDPTNQVSQVFEKSLQYVKRFSRYKNPDAVRQVREVLSRYQLAEFELCVLGNLCPE
        MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQMSEDPTNQVSQVFEKSLQYVKRFSRYKNPDAVRQVRE+LSRYQLAEFELCVLGNLCPE
Subjt:  MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQMSEDPTNQVSQVFEKSLQYVKRFSRYKNPDAVRQVREVLSRYQLAEFELCVLGNLCPE

Query:  TVEEAIAMVPSLKTKGRVHDDEAIEKMLNDLSLIK
        TVEEAI+MVPSLKTKGR HDDEAIEKMLNDLSLIK
Subjt:  TVEEAIAMVPSLKTKGRVHDDEAIEKMLNDLSLIK

SwissProt top hits

e value

%identity

Alignment

O15514 DNA-directed RNA polymerase II subunit RPB4

1.6e-20

42.31

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

Query:  VEEAIAMVPSLKTKGRVHDDEAIEKMLNDL
         EE+ A++PSL  +GR  D+E ++++L+D+
Subjt:  VEEAIAMVPSLKTKGRVHDDEAIEKMLNDL

O48890 DNA-directed RNA polymerase II subunit 4

1.9e-66

93.33

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Query:  MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQMSEDPTNQVSQVFEKSLQYVKRFSRYKNPDAVRQVREVLSRYQLAEFELCVLGNLCPE
        MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHK+EQLQQ+SEDP NQVSQVFEKSLQYVKRFSRYKNPDAVRQVRE+LSR+QL EFELCVLGNLCPE
Subjt:  MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQMSEDPTNQVSQVFEKSLQYVKRFSRYKNPDAVRQVREVLSRYQLAEFELCVLGNLCPE

Query:  TVEEAIAMVPSLKTKGRVHDDEAIEKMLNDLSLIK
        TVEEA+AMVPSLKTKGR HDDEAIEKMLNDLSL+K
Subjt:  TVEEAIAMVPSLKTKGRVHDDEAIEKMLNDLSLIK

Q54S04 DNA-directed RNA polymerase II subunit rpb4

2.1e-17

37.24

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

Query:  LCVLGNLCPETVEEAIAMVPSLKTKGRVHDDEAIEKMLNDLSLIK
        +  L NLCPE  +EA +++PSLK   ++ DDE ++ +L++LS ++
Subjt:  LCVLGNLCPETVEEAIAMVPSLKTKGRVHDDEAIEKMLNDLSLIK

Q9D7M8 DNA-directed RNA polymerase II subunit RPB4

1.6e-20

42.31

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

Query:  VEEAIAMVPSLKTKGRVHDDEAIEKMLNDL
         EE+ A++PSL  +GR  D+E ++++L+D+
Subjt:  VEEAIAMVPSLKTKGRVHDDEAIEKMLNDL

Q9VEA5 DNA-directed RNA polymerase II subunit Rpb4

1.0e-16

37.88

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Query:  EENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQMSEDPTNQVSQVFEKSLQYVKRFSRYKNPDAVRQVREVLSRYQLAEFELCVLGNLCPETVEEA
        +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:  EENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQMSEDPTNQVSQVFEKSLQYVKRFSRYKNPDAVRQVREVLSRYQLAEFELCVLGNLCPETVEEA

Query:  IAMVPSLKTKGRVHDDEAIEKMLNDLSLIKDL
         A++PSL  +GR  D+E + ++L+D+   + L
Subjt:  IAMVPSLKTKGRVHDDEAIEKMLNDLSLIKDL

Arabidopsis top hits

e value

%identity

Alignment

AT4G15950.1 RNA polymerase II, Rpb4, core protein

1.1e-16

38.26

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Query:  AKCLMNCEVSLILEHKYEQLQQMSEDPTNQVSQVFEKSLQYVKRFSRYKNPDAVRQVREVLSRYQLAEFELCVLGNLCPETVEEAIAMVPSLKTKGRVHD
        A+C+M+CE   IL+    QL  +SEDP+ ++   ++++L YV+    Y NP +VR+V E L  Y +++ E+CV+ N   E+V+E +A +PSLKTK  V  
Subjt:  AKCLMNCEVSLILEHKYEQLQQMSEDPTNQVSQVFEKSLQYVKRFSRYKNPDAVRQVREVLSRYQLAEFELCVLGNLCPETVEEAIAMVPSLKTKGRVHD

Query:  DEAIEKMLNDLSLIK
        ++ ++  L +LS +K
Subjt:  DEAIEKMLNDLSLIK

AT5G09920.1 RNA polymerase II, Rpb4, core protein

1.3e-67

93.33

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Query:  MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQMSEDPTNQVSQVFEKSLQYVKRFSRYKNPDAVRQVREVLSRYQLAEFELCVLGNLCPE
        MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHK+EQLQQ+SEDP NQVSQVFEKSLQYVKRFSRYKNPDAVRQVRE+LSR+QL EFELCVLGNLCPE
Subjt:  MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQMSEDPTNQVSQVFEKSLQYVKRFSRYKNPDAVRQVREVLSRYQLAEFELCVLGNLCPE

Query:  TVEEAIAMVPSLKTKGRVHDDEAIEKMLNDLSLIK
        TVEEA+AMVPSLKTKGR HDDEAIEKMLNDLSL+K
Subjt:  TVEEAIAMVPSLKTKGRVHDDEAIEKMLNDLSLIK

Sequences

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CDS sequence

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ATGTCCGGGGAGGAGGAAGAAAATGCTGCTGAGCTTAAAATTGGAGATGAGTTCTTAAAAGCCAAATGTTTAATGAATTGTGAAGTTTCTCTAATCCTTGAACATAAATA
TGAGCAACTTCAACAGATGTCTGAGGATCCAACAAATCAAGTTTCCCAAGTGTTTGAAAAGTCACTTCAATATGTGAAACGCTTCAGCCGTTATAAGAATCCTGATGCTG
TTAGACAAGTTCGAGAAGTTCTAAGCAGGTACCAGTTGGCGGAGTTTGAGCTTTGTGTTCTTGGCAACCTTTGCCCTGAAACTGTGGAAGAAGCCATTGCCATGGTACCA
TCATTGAAGACCAAGGGAAGGGTGCATGACGATGAAGCAATTGAGAAGATGTTGAATGATCTTTCATTAATAAAAGATTTGAGTAGCTAG

mRNA sequence

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Protein sequence

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MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQMSEDPTNQVSQVFEKSLQYVKRFSRYKNPDAVRQVREVLSRYQLAEFELCVLGNLCPETVEEAIAMVP
SLKTKGRVHDDEAIEKMLNDLSLIKDLSS

PI0019284 (gene) of Melon (PI 482460) v1 genome