CuGenDBv2

Gene ID	Clc11G14295
Organism	Citrullus lanatus subsp. cordophanus (Watermelon (cordophanus) v2)
Description	DNA-directed RNA polymerase subunit beta'
Genome location	ClcChr11:25175221..25176566
RNA-Seq Expression	Clc11G14295
Synteny	Clc11G14295
Gene Ontology terms	GO:0006351 - transcription, DNA-templated (biological process) GO:0009507 - chloroplast (cellular component) GO:0000287 - magnesium ion binding (molecular function) GO:0003677 - DNA binding (molecular function) GO:0003899 - DNA-directed 5'-3' RNA polymerase activity (molecular function) GO:0008270 - zinc ion binding (molecular function)
InterPro domains	IPR000722 - RNA polymerase, alpha subunit IPR006592 - RNA polymerase, N-terminal IPR042102 - RNA polymerase Rpb1, domain 3 superfamily

Homology

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GenBank top hits

e value

%identity

Alignment

AQU64813.1 DNA-directed RNA polymerase beta' subunit [Nyssa sinensis]

6.0e-40

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Query:  NRFESMTRLGIQAFQPILVEGRAICLHPLVCNGFNADFDGDQMVVHVPLSLEAQAEARLLMFSHMNLLSPAIGDPFSTSTQDMVIGLYVLASGNRRDTQV
        NR  ++ RLGIQAFQPILVEGRAICLHPLVC GFNADFDGDQM VHVPLSLEAQAEARLLMFSHMNLLSPAIGDP S  TQDM+IGLYVL SGNRR  +V
Subjt:  NRFESMTRLGIQAFQPILVEGRAICLHPLVCNGFNADFDGDQMVVHVPLSLEAQAEARLLMFSHMNLLSPAIGDPFSTSTQDMVIGLYVLASGNRRDTQV

QWZ47172.1 RNA polymerase beta' subunit [Cyclocodon parviflorus]

4.6e-40

78.38

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Query:  RKLLEGE----NRFESMTRLGIQAFQPILVEGRAICLHPLVCNGFNADFDGDQMVVHVPLSLEAQAEARLLMFSHMNLLSPAIGDPFSTSTQDMVIGLYV
        R++++G     NR  ++ RLGIQAFQPILVEGRAICLHPLVC GFNADFDGDQM VHVPLSLEAQAEARLLMFSHMNLLSPAIGDP S  TQDM+IGLYV
Subjt:  RKLLEGE----NRFESMTRLGIQAFQPILVEGRAICLHPLVCNGFNADFDGDQMVVHVPLSLEAQAEARLLMFSHMNLLSPAIGDPFSTSTQDMVIGLYV

Query:  LASGNRRDTQV
        L SGNRR   V
Subjt:  LASGNRRDTQV

YP_009414748.1 RNA polymerase beta' subunit [Platycodon grandiflorus]

4.6e-40

78.38

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Query:  RKLLEGE----NRFESMTRLGIQAFQPILVEGRAICLHPLVCNGFNADFDGDQMVVHVPLSLEAQAEARLLMFSHMNLLSPAIGDPFSTSTQDMVIGLYV
        R++++G     NR  ++ RLGIQAFQPILVEGRAICLHPLVC GFNADFDGDQM VHVPLSLEAQAEARLLMFSHMNLLSPAIGDP S  TQDM+IGLYV
Subjt:  RKLLEGE----NRFESMTRLGIQAFQPILVEGRAICLHPLVCNGFNADFDGDQMVVHVPLSLEAQAEARLLMFSHMNLLSPAIGDPFSTSTQDMVIGLYV

Query:  LASGNRRDTQV
        L SGNRR   V
Subjt:  LASGNRRDTQV

YP_009567704.1 RNA polymerase beta' subunit [Nyssa yunnanensis]

6.0e-40

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Query:  NRFESMTRLGIQAFQPILVEGRAICLHPLVCNGFNADFDGDQMVVHVPLSLEAQAEARLLMFSHMNLLSPAIGDPFSTSTQDMVIGLYVLASGNRRDTQV
        NR  ++ RLGIQAFQPILVEGRAICLHPLVC GFNADFDGDQM VHVPLSLEAQAEARLLMFSHMNLLSPAIGDP S  TQDM+IGLYVL SGNRR  +V
Subjt:  NRFESMTRLGIQAFQPILVEGRAICLHPLVCNGFNADFDGDQMVVHVPLSLEAQAEARLLMFSHMNLLSPAIGDPFSTSTQDMVIGLYVLASGNRRDTQV

YP_009698271.1 RpoC1 [Nyssa ogeche]

6.0e-40

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Query:  NRFESMTRLGIQAFQPILVEGRAICLHPLVCNGFNADFDGDQMVVHVPLSLEAQAEARLLMFSHMNLLSPAIGDPFSTSTQDMVIGLYVLASGNRRDTQV
        NR  ++ RLGIQAFQPILVEGRAICLHPLVC GFNADFDGDQM VHVPLSLEAQAEARLLMFSHMNLLSPAIGDP S  TQDM+IGLYVL SGNRR  +V
Subjt:  NRFESMTRLGIQAFQPILVEGRAICLHPLVCNGFNADFDGDQMVVHVPLSLEAQAEARLLMFSHMNLLSPAIGDPFSTSTQDMVIGLYVLASGNRRDTQV

TrEMBL top hits

e value

%identity

Alignment

A0A1S6PSE8 DNA-directed RNA polymerase subunit beta'

2.9e-40

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Query:  NRFESMTRLGIQAFQPILVEGRAICLHPLVCNGFNADFDGDQMVVHVPLSLEAQAEARLLMFSHMNLLSPAIGDPFSTSTQDMVIGLYVLASGNRRDTQV
        NR  ++ RLGIQAFQPILVEGRAICLHPLVC GFNADFDGDQM VHVPLSLEAQAEARLLMFSHMNLLSPAIGDP S  TQDM+IGLYVL SGNRR  +V
Subjt:  NRFESMTRLGIQAFQPILVEGRAICLHPLVCNGFNADFDGDQMVVHVPLSLEAQAEARLLMFSHMNLLSPAIGDPFSTSTQDMVIGLYVLASGNRRDTQV

A0A240FG57 DNA-directed RNA polymerase subunit beta'

2.2e-40

78.38

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Query:  RKLLEGE----NRFESMTRLGIQAFQPILVEGRAICLHPLVCNGFNADFDGDQMVVHVPLSLEAQAEARLLMFSHMNLLSPAIGDPFSTSTQDMVIGLYV
        R++++G     NR  ++ RLGIQAFQPILVEGRAICLHPLVC GFNADFDGDQM VHVPLSLEAQAEARLLMFSHMNLLSPAIGDP S  TQDM+IGLYV
Subjt:  RKLLEGE----NRFESMTRLGIQAFQPILVEGRAICLHPLVCNGFNADFDGDQMVVHVPLSLEAQAEARLLMFSHMNLLSPAIGDPFSTSTQDMVIGLYV

Query:  LASGNRRDTQV
        L SGNRR   V
Subjt:  LASGNRRDTQV

A0A2H4YLW9 DNA-directed RNA polymerase subunit beta'

2.9e-40

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Query:  NRFESMTRLGIQAFQPILVEGRAICLHPLVCNGFNADFDGDQMVVHVPLSLEAQAEARLLMFSHMNLLSPAIGDPFSTSTQDMVIGLYVLASGNRRDTQV
        NR  ++ RLGIQAFQPILVEGRAICLHPLVC GFNADFDGDQM VHVPLSLEAQAEARLLMFSHMNLLSPAIGDP S  TQDM+IGLYVL SGNRR  +V
Subjt:  NRFESMTRLGIQAFQPILVEGRAICLHPLVCNGFNADFDGDQMVVHVPLSLEAQAEARLLMFSHMNLLSPAIGDPFSTSTQDMVIGLYVLASGNRRDTQV

A0A5C0Q7Q3 DNA-directed RNA polymerase subunit beta'

2.9e-40

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Query:  NRFESMTRLGIQAFQPILVEGRAICLHPLVCNGFNADFDGDQMVVHVPLSLEAQAEARLLMFSHMNLLSPAIGDPFSTSTQDMVIGLYVLASGNRRDTQV
        NR  ++ RLGIQAFQPILVEGRAICLHPLVC GFNADFDGDQM VHVPLSLEAQAEARLLMFSHMNLLSPAIGDP S  TQDM+IGLYVL SGNRR  +V
Subjt:  NRFESMTRLGIQAFQPILVEGRAICLHPLVCNGFNADFDGDQMVVHVPLSLEAQAEARLLMFSHMNLLSPAIGDPFSTSTQDMVIGLYVLASGNRRDTQV

A0A6J5TVP8 DNA-directed RNA polymerase subunit

2.9e-40

85.71

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Query:  NRFESMTRLGIQAFQPILVEGRAICLHPLVCNGFNADFDGDQMVVHVPLSLEAQAEARLLMFSHMNLLSPAIGDPFSTSTQDMVIGLYVLASGNRRDT
        NR  ++ RLGIQAFQPILVEG AICLHPLVC GFNADFDGDQM VHVPLSLEAQAEARLLMFSHMNLLSPAIGDP S  TQDM+IGLYVL SGNRRD+
Subjt:  NRFESMTRLGIQAFQPILVEGRAICLHPLVCNGFNADFDGDQMVVHVPLSLEAQAEARLLMFSHMNLLSPAIGDPFSTSTQDMVIGLYVLASGNRRDT

SwissProt top hits

e value

%identity

Alignment

A6MM27 DNA-directed RNA polymerase subunit beta'

1.7e-42

87.5

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Query:  NRFESMTRLGIQAFQPILVEGRAICLHPLVCNGFNADFDGDQMVVHVPLSLEAQAEARLLMFSHMNLLSPAIGDPFSTSTQDMVIGLYVLASGNRR
        NR  ++ RLGIQAFQPILVEGRAICLHPLVC GFNADFDGDQM VHVPLSLEAQAEARLLMFSHMNLLSPAIGDP S  TQDM+IGLYVL SGNRR
Subjt:  NRFESMTRLGIQAFQPILVEGRAICLHPLVCNGFNADFDGDQMVVHVPLSLEAQAEARLLMFSHMNLLSPAIGDPFSTSTQDMVIGLYVLASGNRR

B1NWE1 DNA-directed RNA polymerase subunit beta'

1.7e-42

87.5

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Query:  NRFESMTRLGIQAFQPILVEGRAICLHPLVCNGFNADFDGDQMVVHVPLSLEAQAEARLLMFSHMNLLSPAIGDPFSTSTQDMVIGLYVLASGNRR
        NR  ++ RLGIQAFQPILVEGRAICLHPLVC GFNADFDGDQM VHVPLSLEAQAEARLLMFSHMNLLSPAIGDP S  TQDM+IGLYVL SGNRR
Subjt:  NRFESMTRLGIQAFQPILVEGRAICLHPLVCNGFNADFDGDQMVVHVPLSLEAQAEARLLMFSHMNLLSPAIGDPFSTSTQDMVIGLYVLASGNRR

P11705 DNA-directed RNA polymerase subunit beta'

2.3e-42

86.46

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Query:  NRFESMTRLGIQAFQPILVEGRAICLHPLVCNGFNADFDGDQMVVHVPLSLEAQAEARLLMFSHMNLLSPAIGDPFSTSTQDMVIGLYVLASGNRR
        NR  ++ RLGIQAFQPILVEGRAICLHPLVC GFNADFDGDQM VHVPLSLEAQAEARLLMFSHMNLLSPAIGDP S  TQDM+IGLY+L SGNRR
Subjt:  NRFESMTRLGIQAFQPILVEGRAICLHPLVCNGFNADFDGDQMVVHVPLSLEAQAEARLLMFSHMNLLSPAIGDPFSTSTQDMVIGLYVLASGNRR

Q06RE0 DNA-directed RNA polymerase subunit beta'

3.9e-42

85.42

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Query:  NRFESMTRLGIQAFQPILVEGRAICLHPLVCNGFNADFDGDQMVVHVPLSLEAQAEARLLMFSHMNLLSPAIGDPFSTSTQDMVIGLYVLASGNRR
        NR  ++ RLGIQAFQP+LVEGRAICLHPLVC GFNADFDGDQM VHVPLSLEAQAEARLLMFSHMNLLSPAIGDP S  TQDM++GLYVL SGNRR
Subjt:  NRFESMTRLGIQAFQPILVEGRAICLHPLVCNGFNADFDGDQMVVHVPLSLEAQAEARLLMFSHMNLLSPAIGDPFSTSTQDMVIGLYVLASGNRR

Q2L8Z4 DNA-directed RNA polymerase subunit beta'

1.7e-42

87.5

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Query:  NRFESMTRLGIQAFQPILVEGRAICLHPLVCNGFNADFDGDQMVVHVPLSLEAQAEARLLMFSHMNLLSPAIGDPFSTSTQDMVIGLYVLASGNRR
        NR  ++ RLGIQAFQPILVEGRAICLHPLVC GFNADFDGDQM VHVPLSLEAQAEARLLMFSHMNLLSPAIGDP S  TQDM+IGLYVL SGNRR
Subjt:  NRFESMTRLGIQAFQPILVEGRAICLHPLVCNGFNADFDGDQMVVHVPLSLEAQAEARLLMFSHMNLLSPAIGDPFSTSTQDMVIGLYVLASGNRR

Arabidopsis top hits

e value

%identity

Alignment

AT3G57660.1 nuclear RNA polymerase A1

2.4e-07

30.3

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Query:  NRFESMTRLGIQAFQPILVEG-RAICLHPLVCNGFNADFDGDQMVVHVPLSLEAQAEARLLMFSHMNLLSPAIGDPFSTSTQDMVIGLYVLASGNRRDT
        NR  ++ +  + A +  +++G + + LH   C+ +NADFDGD+M VH P    ++AEA  ++ ++     P+ G+P     QD ++   +L    +RDT
Subjt:  NRFESMTRLGIQAFQPILVEG-RAICLHPLVCNGFNADFDGDQMVVHVPLSLEAQAEARLLMFSHMNLLSPAIGDPFSTSTQDMVIGLYVLASGNRRDT

AT4G35800.1 RNA polymerase II large subunit

8.4e-08

31.25

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Query:  RKLLEGE----NRFESMTRLGIQAFQPILVEGRAICLHPLVCNGFNADFDGDQMVVHVPLSLEAQAEARLLMFSHMNLLSPAIGDPFSTSTQDMVIGLYV
        R L +G+    NR  S+ ++ I   +  ++      L+  V + +NADFDGD+M +HVP S E +AE   LM     ++SP    P     QD ++G   
Subjt:  RKLLEGE----NRFESMTRLGIQAFQPILVEGRAICLHPLVCNGFNADFDGDQMVVHVPLSLEAQAEARLLMFSHMNLLSPAIGDPFSTSTQDMVIGLYV

Query:  LASGNRRDTQVQ
        +    +RDT ++
Subjt:  LASGNRRDTQVQ

AT5G60040.1 nuclear RNA polymerase C1

1.5e-12

37.27

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Query:  NRKLLEGE----NRFESMTRLGIQAFQPILVEGRAICLHPLVCNGFNADFDGDQMVVHVPLSLEAQAEARLLMFSHMNLLSPAIGDPFSTSTQDMVIGLY
        +R L EG+    NR  S+ R+ I   +  ++  R +  +  VCN +NADFDGD+M +HVP + EA+ EA  LM    NL +P  G+    STQD +   +
Subjt:  NRKLLEGE----NRFESMTRLGIQAFQPILVEGRAICLHPLVCNGFNADFDGDQMVVHVPLSLEAQAEARLLMFSHMNLLSPAIGDPFSTSTQDMVIGLY

Query:  VLASGNRRDT
        ++    R+DT
Subjt:  VLASGNRRDT

AT5G60040.2 nuclear RNA polymerase C1

1.5e-12

37.27

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Query:  NRKLLEGE----NRFESMTRLGIQAFQPILVEGRAICLHPLVCNGFNADFDGDQMVVHVPLSLEAQAEARLLMFSHMNLLSPAIGDPFSTSTQDMVIGLY
        +R L EG+    NR  S+ R+ I   +  ++  R +  +  VCN +NADFDGD+M +HVP + EA+ EA  LM    NL +P  G+    STQD +   +
Subjt:  NRKLLEGE----NRFESMTRLGIQAFQPILVEGRAICLHPLVCNGFNADFDGDQMVVHVPLSLEAQAEARLLMFSHMNLLSPAIGDPFSTSTQDMVIGLY

Query:  VLASGNRRDT
        ++    R+DT
Subjt:  VLASGNRRDT

ATCG00180.1 DNA-directed RNA polymerase family protein

4.0e-42

84.38

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Query:  NRFESMTRLGIQAFQPILVEGRAICLHPLVCNGFNADFDGDQMVVHVPLSLEAQAEARLLMFSHMNLLSPAIGDPFSTSTQDMVIGLYVLASGNRR
        NR  ++ RLGIQ+FQPILVEGR ICLHPLVC GFNADFDGDQM VHVPLSLEAQAEARLLMFSHMNLLSPAIGDP S  TQDM+IGLYVL SG RR
Subjt:  NRFESMTRLGIQAFQPILVEGRAICLHPLVCNGFNADFDGDQMVVHVPLSLEAQAEARLLMFSHMNLLSPAIGDPFSTSTQDMVIGLYVLASGNRR

Sequences

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CDS sequence

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ATGTTCAATAAAAGGAATGAGGGAAGCTCTAATAGAAAACTATTGGAAGGGGAAAATAGGTTTGAGTCAATGACTAGATTAGGCATCCAGGCCTTCCAACCTATTTTAGT
GGAAGGACGTGCTATTTGTTTACATCCATTAGTTTGTAATGGATTCAATGCTGACTTTGATGGGGATCAAATGGTTGTTCATGTACCTTTATCTTTGGAGGCTCAAGCAG
AGGCGCGTTTACTTATGTTTTCTCATATGAATCTCTTGTCTCCAGCTATTGGGGATCCCTTTTCTACATCAACTCAAGACATGGTTATTGGACTCTATGTATTAGCAAGT
GGGAATCGCCGAGATACTCAGGTTCAAATACCCATGGAATCACTATTTGCTTATTAG

mRNA sequence

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Protein sequence

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MFNKRNEGSSNRKLLEGENRFESMTRLGIQAFQPILVEGRAICLHPLVCNGFNADFDGDQMVVHVPLSLEAQAEARLLMFSHMNLLSPAIGDPFSTSTQDMVIGLYVLAS
GNRRDTQVQIPMESLFAY

Clc11G14295 (gene) of Watermelon (cordophanus) v2 genome