CuGenDBv2

Gene ID	Cla97C11G214680
Organism	Citrullus lanatus subsp. vulgaris cv. 97103 (Watermelon (97103) v2.5)
Description	DNA-directed RNA polymerase subunit beta''
Genome location	Cla97Chr11:8609375..8609722
RNA-Seq Expression	Cla97C11G214680
Synteny	Cla97C11G214680
Gene Ontology terms	GO:0006351 - transcription, DNA-templated (biological process) GO:0003677 - DNA binding (molecular function) GO:0003899 - DNA-directed 5'-3' RNA polymerase activity (molecular function)
InterPro domains	IPR007081 - RNA polymerase Rpb1, domain 5

Homology

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GenBank top hits

e value

%identity

Alignment

AFU94808.1 RpoC2, partial [Podostemum ceratophyllum]

3.5e-23

59.35

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Query:  MIDLPIQSNLREGLSLTEYIISCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIV------GSPRATHTNP---TLLSP--ILSLSLLGNHEEDS----R
        MIDLPIQSNLREGLSLTEYIISCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIV      G+ R    NP     ++P  I   +L+G    D+    R
Subjt:  MIDLPIQSNLREGLSLTEYIISCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIV------GSPRATHTNP---TLLSP--ILSLSLLGNHEEDS----R

Query:  TGLSGRGAAVGIGNVFQFINSFR
          ++ R   +G+G V +FIN  R
Subjt:  TGLSGRGAAVGIGNVFQFINSFR

AWI70475.1 RNA polymerase beta chain [Leuconotis anceps]

2.0e-23

62.39

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Query:  MIDLPIQSNLREGLSLTEYIISCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIV------GSPRATHTNP---TLLSPILSLSLLGN-HEEDSRTG---
        MIDLPIQSNLREGLSLTEYIISCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIV      G+PR    +P   T+   +   +L+G    +D  TG   
Subjt:  MIDLPIQSNLREGLSLTEYIISCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIV------GSPRATHTNP---TLLSPILSLSLLGN-HEEDSRTG---

Query:  LSGRGAAVGIGNVFQFI
        ++ R   VGIG V +FI
Subjt:  LSGRGAAVGIGNVFQFI

QTJ29313.1 RNA polymerase beta'' subunit [Pleuropogon hooverianus]

3.5e-23

57.5

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Query:  MIDLPIQSNLREGLSLTEYIISCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIV------GSPRATHTNPT--LLSPILSLSLLGNHEED----SRTGL
        MIDLPIQSNLREGLSLTEYIISCYGARKGVVDTAVRT+DAGYLTRRLVEVVQHI+      G+ R    NP   +   + + +L+G    D        +
Subjt:  MIDLPIQSNLREGLSLTEYIISCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIV------GSPRATHTNPT--LLSPILSLSLLGNHEED----SRTGL

Query:  SGRGAAVGIGNVFQFINSFR
        + R   +GIG V +FI +FR
Subjt:  SGRGAAVGIGNVFQFINSFR

YP_009923221.1 RNA polymerase beta'' subunit [Glyceria septentrionalis]

3.5e-23

57.5

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Query:  MIDLPIQSNLREGLSLTEYIISCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIV------GSPRATHTNPT--LLSPILSLSLLGNHEED----SRTGL
        MIDLPIQSNLREGLSLTEYIISCYGARKGVVDTAVRT+DAGYLTRRLVEVVQHI+      G+ R    NP   +   + + +L+G    D        +
Subjt:  MIDLPIQSNLREGLSLTEYIISCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIV------GSPRATHTNPT--LLSPILSLSLLGNHEED----SRTGL

Query:  SGRGAAVGIGNVFQFINSFR
        + R   +GIG V +FI +FR
Subjt:  SGRGAAVGIGNVFQFINSFR

YP_009923304.1 RNA polymerase beta'' subunit [Glyceria arkansana]

3.5e-23

57.5

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Query:  MIDLPIQSNLREGLSLTEYIISCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIV------GSPRATHTNPT--LLSPILSLSLLGNHEED----SRTGL
        MIDLPIQSNLREGLSLTEYIISCYGARKGVVDTAVRT+DAGYLTRRLVEVVQHI+      G+ R    NP   +   + + +L+G    D        +
Subjt:  MIDLPIQSNLREGLSLTEYIISCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIV------GSPRATHTNPT--LLSPILSLSLLGNHEED----SRTGL

Query:  SGRGAAVGIGNVFQFINSFR
        + R   +GIG V +FI +FR
Subjt:  SGRGAAVGIGNVFQFINSFR

TrEMBL top hits

e value

%identity

Alignment

A0A159BIS8 DNA-directed RNA polymerase subunit beta''

2.2e-23

58.33

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Query:  MIDLPIQSNLREGLSLTEYIISCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIV------GSPRATHTNPT--LLSPILSLSLLGNHEED----SRTGL
        MIDLPIQSNLREGLSLTEYIISCYGARKGVVDTAVRT+DAGYLTRRLVEVVQHI+      G+ R    NP   +   I   +L+G    D        +
Subjt:  MIDLPIQSNLREGLSLTEYIISCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIV------GSPRATHTNPT--LLSPILSLSLLGNHEED----SRTGL

Query:  SGRGAAVGIGNVFQFINSFR
        + R   +GIG V +FI +FR
Subjt:  SGRGAAVGIGNVFQFINSFR

A0A2S1U693 DNA-directed RNA polymerase subunit beta''

9.9e-24

62.39

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Query:  MIDLPIQSNLREGLSLTEYIISCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIV------GSPRATHTNP---TLLSPILSLSLLGN-HEEDSRTG---
        MIDLPIQSNLREGLSLTEYIISCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIV      G+PR    +P   T+   +   +L+G    +D  TG   
Subjt:  MIDLPIQSNLREGLSLTEYIISCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIV------GSPRATHTNP---TLLSPILSLSLLGN-HEEDSRTG---

Query:  LSGRGAAVGIGNVFQFI
        ++ R   VGIG V +FI
Subjt:  LSGRGAAVGIGNVFQFI

A0A7G6KHU6 DNA-directed RNA polymerase subunit beta''

1.7e-23

57.5

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Query:  MIDLPIQSNLREGLSLTEYIISCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIV------GSPRATHTNPT--LLSPILSLSLLGNHEED----SRTGL
        MIDLPIQSNLREGLSLTEYIISCYGARKGVVDTAVRT+DAGYLTRRLVEVVQHI+      G+ R    NP   +   + + +L+G    D        +
Subjt:  MIDLPIQSNLREGLSLTEYIISCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIV------GSPRATHTNPT--LLSPILSLSLLGNHEED----SRTGL

Query:  SGRGAAVGIGNVFQFINSFR
        + R   +GIG V +FI +FR
Subjt:  SGRGAAVGIGNVFQFINSFR

A0A7G6KI29 DNA-directed RNA polymerase subunit beta''

1.7e-23

57.5

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Query:  MIDLPIQSNLREGLSLTEYIISCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIV------GSPRATHTNPT--LLSPILSLSLLGNHEED----SRTGL
        MIDLPIQSNLREGLSLTEYIISCYGARKGVVDTAVRT+DAGYLTRRLVEVVQHI+      G+ R    NP   +   + + +L+G    D        +
Subjt:  MIDLPIQSNLREGLSLTEYIISCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIV------GSPRATHTNPT--LLSPILSLSLLGNHEED----SRTGL

Query:  SGRGAAVGIGNVFQFINSFR
        + R   +GIG V +FI +FR
Subjt:  SGRGAAVGIGNVFQFINSFR

K4K9Y0 DNA-directed RNA polymerase (Fragment)

1.7e-23

59.35

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Query:  MIDLPIQSNLREGLSLTEYIISCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIV------GSPRATHTNP---TLLSP--ILSLSLLGNHEEDS----R
        MIDLPIQSNLREGLSLTEYIISCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIV      G+ R    NP     ++P  I   +L+G    D+    R
Subjt:  MIDLPIQSNLREGLSLTEYIISCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIV------GSPRATHTNP---TLLSP--ILSLSLLGNHEEDS----R

Query:  TGLSGRGAAVGIGNVFQFINSFR
          ++ R   +G+G V +FIN  R
Subjt:  TGLSGRGAAVGIGNVFQFINSFR

SwissProt top hits

e value

%identity

Alignment

A1E9I3 DNA-directed RNA polymerase subunit beta''

3.9e-25

56.67

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Query:  MIDLPIQSNLREGLSLTEYIISCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIV------GSPRATHTNPT--LLSPILSLSLLGNHEED----SRTGL
        MIDLPIQSNLREGLSLTEYIISCYGARKGVVDTAVRT+DAGYLTRRLVEVVQHI+      G+ R    +P   +   +   +L+G    D        +
Subjt:  MIDLPIQSNLREGLSLTEYIISCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIV------GSPRATHTNPT--LLSPILSLSLLGNHEED----SRTGL

Query:  SGRGAAVGIGNVFQFINSFR
        + R   +GIG V +FI +FR
Subjt:  SGRGAAVGIGNVFQFINSFR

A8Y9G2 DNA-directed RNA polymerase subunit beta''

3.9e-25

56.67

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Query:  MIDLPIQSNLREGLSLTEYIISCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIV------GSPRATHTNPT--LLSPILSLSLLGNHEED----SRTGL
        MIDLPIQSNLREGLSLTEYIISCYGARKGVVDTAVRT+DAGYLTRRLVEVVQHI+      G+ R    +P   +   +   +L+G    D        +
Subjt:  MIDLPIQSNLREGLSLTEYIISCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIV------GSPRATHTNPT--LLSPILSLSLLGNHEED----SRTGL

Query:  SGRGAAVGIGNVFQFINSFR
        + R   +GIG V +FI +FR
Subjt:  SGRGAAVGIGNVFQFINSFR

Q2MIB0 DNA-directed RNA polymerase subunit beta''

2.3e-25

60.68

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Query:  MIDLPIQSNLREGLSLTEYIISCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIV------GSPRATHTNP---TLLSPILSLSLLGNHEED----SRTG
        MIDLPIQSNLREGLSLTEYIISCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIV      G+ R    +P    +   I S +L+G    D        
Subjt:  MIDLPIQSNLREGLSLTEYIISCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIV------GSPRATHTNP---TLLSPILSLSLLGNHEED----SRTG

Query:  LSGRGAAVGIGNVFQFI
        ++ R  A+GIG V +FI
Subjt:  LSGRGAAVGIGNVFQFI

Q2MIJ7 DNA-directed RNA polymerase subunit beta''

2.3e-25

60.68

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Query:  MIDLPIQSNLREGLSLTEYIISCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIV------GSPRATHTNP---TLLSPILSLSLLGNHEED----SRTG
        MIDLPIQSNLREGLSLTEYIISCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIV      G+ R    +P    +   I S +L+G    D        
Subjt:  MIDLPIQSNLREGLSLTEYIISCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIV------GSPRATHTNP---TLLSPILSLSLLGNHEED----SRTG

Query:  LSGRGAAVGIGNVFQFI
        ++ R  A+GIG V +FI
Subjt:  LSGRGAAVGIGNVFQFI

Q2VEI6 DNA-directed RNA polymerase subunit beta''

2.3e-25

60.68

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Query:  MIDLPIQSNLREGLSLTEYIISCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIV------GSPRATHTNP---TLLSPILSLSLLGNHEED----SRTG
        MIDLPIQSNLREGLSLTEYIISCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIV      G+ R    +P    +   I S +L+G    D        
Subjt:  MIDLPIQSNLREGLSLTEYIISCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIV------GSPRATHTNP---TLLSPILSLSLLGNHEED----SRTG

Query:  LSGRGAAVGIGNVFQFI
        ++ R  A+GIG V +FI
Subjt:  LSGRGAAVGIGNVFQFI

Arabidopsis top hits

e value

%identity

Alignment

AT3G57660.1 nuclear RNA polymerase A1

3.9e-04

40.82

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Query:  IQSNLREGLSLTEYIISCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHI
        I      GL   EY   C   R+G+VDTAV+TS +GYL R L++ ++ +
Subjt:  IQSNLREGLSLTEYIISCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHI

AT4G35800.1 RNA polymerase II large subunit

7.0e-06

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Query:  IQSNLREGLSLTEYIISCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIV
        ++++   GL+  E+     G R+G++DTAV+TS+ GY+ RRLV+ ++ I+
Subjt:  IQSNLREGLSLTEYIISCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIV

AT5G60040.1 nuclear RNA polymerase C1

1.2e-05

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Query:  IQSNLREGLSLTEYIISCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIV
        + ++   GL+ TE+     G R+G+VDTAV+T+  GY++RRL++ ++ ++
Subjt:  IQSNLREGLSLTEYIISCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIV

AT5G60040.2 nuclear RNA polymerase C1

1.2e-05

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Query:  IQSNLREGLSLTEYIISCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIV
        + ++   GL+ TE+     G R+G+VDTAV+T+  GY++RRL++ ++ ++
Subjt:  IQSNLREGLSLTEYIISCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIV

ATCG00170.1 DNA-directed RNA polymerase family protein

1.5e-24

100

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Query:  MIDLPIQSNLREGLSLTEYIISCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIV
        MIDLPIQSNLREGLSLTEYIISCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIV
Subjt:  MIDLPIQSNLREGLSLTEYIISCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIV

Sequences

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CDS sequence

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ATGATTGATTTACCCATTCAAAGCAATTTACGTGAGGGGCTGTCCTTAACGGAATATATAATTTCTTGCTACGGAGCGCGGAAAGGAGTTGTGGATACTGCTGTACGAAC
ATCGGATGCTGGATATCTTACACGCAGACTTGTTGAAGTAGTTCAACACATTGTTGGTAGCCCGCGCGCGACCCATACCAATCCTACACTCCTTTCTCCTATTCTTTCTT
TGTCACTTCTTGGAAATCACGAAGAGGATTCCCGGACTGGACTGAGCGGGAGGGGAGCTGCTGTCGGTATTGGAAACGTTTTTCAGTTCATTAATTCATTCCGTGGCGCG
AAATCCATCATTGGCTAA

mRNA sequence

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Protein sequence

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MIDLPIQSNLREGLSLTEYIISCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIVGSPRATHTNPTLLSPILSLSLLGNHEEDSRTGLSGRGAAVGIGNVFQFINSFRGA
KSIIG

Cla97C11G214680 (gene) of Watermelon (97103) v2.5 genome