CuGenDBv2

Gene ID	IVF0021018
Organism	Cucumis melo ssp. agrestis cv. IVF77 (Melon (IVF77) v1)
Description	DNA-directed RNA polymerase II subunit 4-like
Genome location	chr09:1271278..1274720
RNA-Seq Expression	IVF0021018
Synteny	IVF0021018
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

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

6.86e-90

98.55

Show/hide

Query:  MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQRAEDPTNQISQVFEKSLQYVKRFSRYKNPDAVRQVREILSRYQLAEFELCVLGNLCPE
        MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQRAEDPTNQ+SQVFEKSLQYVKRFSRYKNPDAVRQVREILSRYQLAEFELCVLGNLCPE
Subjt:  MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQRAEDPTNQISQVFEKSLQYVKRFSRYKNPDAVRQVREILSRYQLAEFELCVLGNLCPE

Query:  TVEEATSIVPSLKTKGRVHDDEAIEKMLNDLSLIKKFE
        TVEEATSIVPSLKTKGRVH+DEAIEKMLNDLSLIKKFE
Subjt:  TVEEATSIVPSLKTKGRVHDDEAIEKMLNDLSLIKKFE

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

1.18e-90

100

Show/hide

Query:  MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQRAEDPTNQISQVFEKSLQYVKRFSRYKNPDAVRQVREILSRYQLAEFELCVLGNLCPE
        MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQRAEDPTNQISQVFEKSLQYVKRFSRYKNPDAVRQVREILSRYQLAEFELCVLGNLCPE
Subjt:  MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQRAEDPTNQISQVFEKSLQYVKRFSRYKNPDAVRQVREILSRYQLAEFELCVLGNLCPE

Query:  TVEEATSIVPSLKTKGRVHDDEAIEKMLNDLSLIKKFE
        TVEEATSIVPSLKTKGRVHDDEAIEKMLNDLSLIKKFE
Subjt:  TVEEATSIVPSLKTKGRVHDDEAIEKMLNDLSLIKKFE

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

3.82e-87

95.65

Show/hide

Query:  MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQRAEDPTNQISQVFEKSLQYVKRFSRYKNPDAVRQVREILSRYQLAEFELCVLGNLCPE
        MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQ +EDPTNQ+SQVFEKSLQYVKRFSRYKNPDAVRQVREILSRYQLAEFELCVLGNLCPE
Subjt:  MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQRAEDPTNQISQVFEKSLQYVKRFSRYKNPDAVRQVREILSRYQLAEFELCVLGNLCPE

Query:  TVEEATSIVPSLKTKGRVHDDEAIEKMLNDLSLIKKFE
        TVEEA S+VPSLKTKGR HDDEAIEKMLNDLSLIKKFE
Subjt:  TVEEATSIVPSLKTKGRVHDDEAIEKMLNDLSLIKKFE

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

7.70e-87

94.93

Show/hide

Query:  MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQRAEDPTNQISQVFEKSLQYVKRFSRYKNPDAVRQVREILSRYQLAEFELCVLGNLCPE
        MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQ +EDPTNQ+SQVFEKSLQYVKRFSRYKNPDAVRQVREILSRYQLAEFELCVLGNLCPE
Subjt:  MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQRAEDPTNQISQVFEKSLQYVKRFSRYKNPDAVRQVREILSRYQLAEFELCVLGNLCPE

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

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

1.97e-89

97.83

Show/hide

Query:  MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQRAEDPTNQISQVFEKSLQYVKRFSRYKNPDAVRQVREILSRYQLAEFELCVLGNLCPE
        MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQRAEDPTNQ+SQVFEKSLQYVKRFSRYKNPDAVRQVREILSRYQLAEFELCVLGNLCPE
Subjt:  MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQRAEDPTNQISQVFEKSLQYVKRFSRYKNPDAVRQVREILSRYQLAEFELCVLGNLCPE

Query:  TVEEATSIVPSLKTKGRVHDDEAIEKMLNDLSLIKKFE
        TVEEA S+VPSLKTKGRVHDDEAIEKMLNDLSLIKKFE
Subjt:  TVEEATSIVPSLKTKGRVHDDEAIEKMLNDLSLIKKFE

TrEMBL top hits

e value

%identity

Alignment

A0A1S3CA78 DNA-directed RNA polymerase II subunit 4-like

1.4e-69

100

Show/hide

Query:  MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQRAEDPTNQISQVFEKSLQYVKRFSRYKNPDAVRQVREILSRYQLAEFELCVLGNLCPE
        MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQRAEDPTNQISQVFEKSLQYVKRFSRYKNPDAVRQVREILSRYQLAEFELCVLGNLCPE
Subjt:  MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQRAEDPTNQISQVFEKSLQYVKRFSRYKNPDAVRQVREILSRYQLAEFELCVLGNLCPE

Query:  TVEEATSIVPSLKTKGRVHDDEAIEKMLNDLSLIKKFE
        TVEEATSIVPSLKTKGRVHDDEAIEKMLNDLSLIKKFE
Subjt:  TVEEATSIVPSLKTKGRVHDDEAIEKMLNDLSLIKKFE

A0A5A7T811 DNA-directed RNA polymerase II subunit 4-like

1.4e-69

100

Show/hide

Query:  MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQRAEDPTNQISQVFEKSLQYVKRFSRYKNPDAVRQVREILSRYQLAEFELCVLGNLCPE
        MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQRAEDPTNQISQVFEKSLQYVKRFSRYKNPDAVRQVREILSRYQLAEFELCVLGNLCPE
Subjt:  MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQRAEDPTNQISQVFEKSLQYVKRFSRYKNPDAVRQVREILSRYQLAEFELCVLGNLCPE

Query:  TVEEATSIVPSLKTKGRVHDDEAIEKMLNDLSLIKKFE
        TVEEATSIVPSLKTKGRVHDDEAIEKMLNDLSLIKKFE
Subjt:  TVEEATSIVPSLKTKGRVHDDEAIEKMLNDLSLIKKFE

A0A5D3C019 DNA-directed RNA polymerase II subunit 4

1.5e-66

94.2

Show/hide

Query:  MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQRAEDPTNQISQVFEKSLQYVKRFSRYKNPDAVRQVREILSRYQLAEFELCVLGNLCPE
        MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQ +EDPTNQ+SQVFEKSLQYVKRFSRYKNPDAVRQVRE+LSRYQLAEFELCVLGNLCPE
Subjt:  MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQRAEDPTNQISQVFEKSLQYVKRFSRYKNPDAVRQVREILSRYQLAEFELCVLGNLCPE

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

A0A6J1FFS7 DNA-directed RNA polymerase II subunit 4-like

6.6e-67

95.65

Show/hide

Query:  MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQRAEDPTNQISQVFEKSLQYVKRFSRYKNPDAVRQVREILSRYQLAEFELCVLGNLCPE
        MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQ +EDPTNQ+SQVFEKSLQYVKRFSRYKNPDAVRQVREILSRYQLAEFELCVLGNLCPE
Subjt:  MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQRAEDPTNQISQVFEKSLQYVKRFSRYKNPDAVRQVREILSRYQLAEFELCVLGNLCPE

Query:  TVEEATSIVPSLKTKGRVHDDEAIEKMLNDLSLIKKFE
        TVEEA S+VPSLKTKGR HDDEAIEKMLNDLSLIKKFE
Subjt:  TVEEATSIVPSLKTKGRVHDDEAIEKMLNDLSLIKKFE

A0A6J1JVN3 DNA-directed RNA polymerase II subunit 4-like

6.6e-67

95.65

Show/hide

Query:  MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQRAEDPTNQISQVFEKSLQYVKRFSRYKNPDAVRQVREILSRYQLAEFELCVLGNLCPE
        MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQ +EDPTNQ+SQVFEKSLQYVKRFSRYKNPDAVRQVREILSRYQLAEFELCVLGNLCPE
Subjt:  MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQRAEDPTNQISQVFEKSLQYVKRFSRYKNPDAVRQVREILSRYQLAEFELCVLGNLCPE

Query:  TVEEATSIVPSLKTKGRVHDDEAIEKMLNDLSLIKKFE
        TVEEA S+VPSLKTKGR HDDEAIEKMLNDLSLIKKFE
Subjt:  TVEEATSIVPSLKTKGRVHDDEAIEKMLNDLSLIKKFE

SwissProt top hits

e value

%identity

Alignment

O15514 DNA-directed RNA polymerase II subunit RPB4

1.1e-21

41.61

Show/hide

Query:  SGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQRAEDPTNQISQVFEKSLQYVKRFSRYKNPDAVRQVREILSRYQLAEFELCVLGNLCPET
        +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:  SGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQRAEDPTNQISQVFEKSLQYVKRFSRYKNPDAVRQVREILSRYQLAEFELCVLGNLCPET

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

O48890 DNA-directed RNA polymerase II subunit 4

2.4e-66

90.58

Show/hide

Query:  MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQRAEDPTNQISQVFEKSLQYVKRFSRYKNPDAVRQVREILSRYQLAEFELCVLGNLCPE
        MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHK+EQLQQ +EDP NQ+SQVFEKSLQYVKRFSRYKNPDAVRQVREILSR+QL EFELCVLGNLCPE
Subjt:  MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQRAEDPTNQISQVFEKSLQYVKRFSRYKNPDAVRQVREILSRYQLAEFELCVLGNLCPE

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

Q54S04 DNA-directed RNA polymerase II subunit rpb4

2.2e-19

38.1

Show/hide

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

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

Q9D7M8 DNA-directed RNA polymerase II subunit RPB4

1.1e-21

41.61

Show/hide

Query:  SGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQRAEDPTNQISQVFEKSLQYVKRFSRYKNPDAVRQVREILSRYQLAEFELCVLGNLCPET
        +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:  SGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQRAEDPTNQISQVFEKSLQYVKRFSRYKNPDAVRQVREILSRYQLAEFELCVLGNLCPET

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

Q9VEA5 DNA-directed RNA polymerase II subunit Rpb4

6.1e-17

37.3

Show/hide

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

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

1.8e-16

38.14

Show/hide

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

Query:  DEAIEKMLNDLSLIKKFE
        ++ ++  L +LS +KK E
Subjt:  DEAIEKMLNDLSLIKKFE

AT5G09920.1 RNA polymerase II, Rpb4, core protein

1.7e-67

90.58

Show/hide

Query:  MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQRAEDPTNQISQVFEKSLQYVKRFSRYKNPDAVRQVREILSRYQLAEFELCVLGNLCPE
        MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHK+EQLQQ +EDP NQ+SQVFEKSLQYVKRFSRYKNPDAVRQVREILSR+QL EFELCVLGNLCPE
Subjt:  MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQRAEDPTNQISQVFEKSLQYVKRFSRYKNPDAVRQVREILSRYQLAEFELCVLGNLCPE

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

Sequences

Show/hide sequences

CDS sequence

Show/hide CDS sequence

ATGTCTGGAGAAGAGGAAGAAAATGCTGCAGAGCTTAAAATTGGGGATGAGTTCTTAAAAGCTAAGTGTTTAATGAATTGTGAGGTTTCTTTGATCCTGGAACACAAGTA
TGAGCAGCTTCAACAAAGGGCCGAAGATCCAACAAATCAAATTTCTCAAGTGTTCGAGAAGTCACTGCAGTATGTGAAACGCTTCAGTCGCTACAAGAACCCTGATGCTG
TTAGACAAGTTCGAGAAATTCTAAGCAGATATCAACTAGCTGAGTTCGAGTTATGTGTTCTTGGCAACCTTTGCCCTGAAACTGTGGAGGAAGCTACTTCCATAGTTCCA
TCTTTGAAGACTAAAGGAAGAGTGCATGACGACGAAGCAATAGAGAAGATGTTGAATGATCTTTCATTAATCAAAAAGTTTGAGTAG

mRNA sequence

Show/hide mRNA sequence

CACCGTTATTGCCCTTTGTCCGAGTTGAAAACGAAGAAGCTGCCTCTGATTTTGCCGTCGCCGGATCTCTGCATTTTGTGTTGCGTTCTCTCCTCTCTCGTGTAGGTTGG
ACAAATCTTTAATTTGAAGCATGTCTGGAGAAGAGGAAGAAAATGCTGCAGAGCTTAAAATTGGGGATGAGTTCTTAAAAGCTAAGTGTTTAATGAATTGTGAGGTTTCT
TTGATCCTGGAACACAAGTATGAGCAGCTTCAACAAAGGGCCGAAGATCCAACAAATCAAATTTCTCAAGTGTTCGAGAAGTCACTGCAGTATGTGAAACGCTTCAGTCG
CTACAAGAACCCTGATGCTGTTAGACAAGTTCGAGAAATTCTAAGCAGATATCAACTAGCTGAGTTCGAGTTATGTGTTCTTGGCAACCTTTGCCCTGAAACTGTGGAGG
AAGCTACTTCCATAGTTCCATCTTTGAAGACTAAAGGAAGAGTGCATGACGACGAAGCAATAGAGAAGATGTTGAATGATCTTTCATTAATCAAAAAGTTTGAGTAG

Protein sequence

Show/hide protein sequence

MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQRAEDPTNQISQVFEKSLQYVKRFSRYKNPDAVRQVREILSRYQLAEFELCVLGNLCPETVEEATSIVP
SLKTKGRVHDDEAIEKMLNDLSLIKKFE

IVF0021018 (gene) of Melon (IVF77) v1 genome