CuGenDBv2

Gene ID	Clc11G08370
Organism	Citrullus lanatus subsp. cordophanus (Watermelon (cordophanus) v2)
Description	DNA-directed RNA polymerase subunit beta''
Genome location	ClcChr11:8639809..8640590
RNA-Seq Expression	Clc11G08370
Synteny	Clc11G08370
Gene Ontology terms	GO:0006351 - transcription, DNA-templated (biological process) GO:0006412 - translation (biological process) GO:0006952 - defense response (biological process) GO:0015986 - ATP synthesis coupled proton transport (biological process) GO:0009607 - response to biotic stimulus (biological process) GO:0045263 - proton-transporting ATP synthase complex, coupling factor F(o) (cellular component) GO:0005739 - mitochondrion (cellular component) GO:0016021 - integral component of membrane (cellular component) GO:0009507 - chloroplast (cellular component) GO:0015935 - small ribosomal subunit (cellular component) GO:0015078 - proton transmembrane transporter activity (molecular function) GO:0003677 - DNA binding (molecular function) GO:0008289 - lipid binding (molecular function) GO:0008270 - zinc ion binding (molecular function) GO:0003899 - DNA-directed 5'-3' RNA polymerase activity (molecular function) GO:0003735 - structural constituent of ribosome (molecular function)
InterPro domains	IPR007081 - RNA polymerase Rpb1, domain 5 IPR000454 - ATP synthase, F0 complex, subunit C IPR002379 - V-ATPase proteolipid subunit C-like domain IPR020537 - ATP synthase, F0 complex, subunit C, DCCD-binding site IPR035921 - F/V-ATP synthase subunit C superfamily IPR038662 - F1F0 ATP synthase subunit C superfamily

Homology

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GenBank top hits

e value

%identity

Alignment

ABV65789.1 RNA polymerase beta'' subunit, partial [Wendtia gracilis]

4.6e-22

64.22

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Query:  MIDLPIQSNLREGLSLTEYIISCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIV------GSPRATHTNP-TLLSPILSLSLLGNHEEDS----RTGLS
        MIDLPIQSNLREGLSLTEYIISCYGARKGVVDTAVRT+DAGYLTRRLVEVVQHIV      G+ RA   +P T+ + ILS +L+G    DS       ++
Subjt:  MIDLPIQSNLREGLSLTEYIISCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIV------GSPRATHTNP-TLLSPILSLSLLGNHEEDS----RTGLS

Query:  GRGAAVGIG
         R   +GIG
Subjt:  GRGAAVGIG

AWI70475.1 RNA polymerase beta chain [Leuconotis anceps]

4.6e-22

62.83

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

Query:  LSGRGAAVGIGNV
        ++ R   VGIG V
Subjt:  LSGRGAAVGIGNV

KAF3452179.1 hypothetical protein FNV43_RR08277 [Rhamnella rubrinervis]

2.4e-23

91.3

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Query:  LSLSLLGNHEEDSRTGLSGRGAAVGIGNVFSSLIHSVARNPSLAKQSFGYAILGFALTEAIALFAPMMA
        +SLSLLGNHEEDSRTGLSGRGAAVGIGNV SSLIHSVARNPSLAKQSFGYAILGFALTEAIA FA   A
Subjt:  LSLSLLGNHEEDSRTGLSGRGAAVGIGNVFSSLIHSVARNPSLAKQSFGYAILGFALTEAIALFAPMMA

KAF4349909.1 hypothetical protein G4B88_002331 [Cannabis sativa]

7.6e-33

80.85

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Query:  RLVEVVQHIVGSPRATHTNPTLLSPILSLSLLGNHEEDSRTGLSGRGAAVGIGNVFSSLIHSVARNPSLAKQSFGYAILGFALTEAIALFAPMM
        R+ ++ +H  GSPR THTNPTLLS I+SLSLLGNHEEDSRTGLSGRGAAVGIGNVFSSLIHSVARNPSLAKQ FGYAI GFALTEAIA+  P++
Subjt:  RLVEVVQHIVGSPRATHTNPTLLSPILSLSLLGNHEEDSRTGLSGRGAAVGIGNVFSSLIHSVARNPSLAKQSFGYAILGFALTEAIALFAPMM

WP_131796660.1 ATP synthase subunit C family protein [Candidatus Frankia datiscae]

2.2e-24

91.43

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Query:  SLSLLGNHEEDSRTGLSGRGAAVGIGNVFSSLIHSVARNPSLAKQSFGYAILGFALTEAIALFAPMMAGQ
        SLSLLGNHEEDSRTGLSGRGAA GIGNVFSSLIHSVARNPSLAKQSFGYAILGFALTEAIA FAP  A +
Subjt:  SLSLLGNHEEDSRTGLSGRGAAVGIGNVFSSLIHSVARNPSLAKQSFGYAILGFALTEAIALFAPMMAGQ

TrEMBL top hits

e value

%identity

Alignment

A0A1X9WDB9 DNA-directed RNA polymerase subunit beta''

8.5e-22

61.06

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Query:  MIDLPIQSNLREGLSLTEYIISCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIV------GSPRATHTNP---TLLSPILSLSLLG----NHEEDSRTG
        MIDLPIQSNLREGLSLTEYIISCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIV      G+ R    NP   T+   IL  +L+G    +H       
Subjt:  MIDLPIQSNLREGLSLTEYIISCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIV------GSPRATHTNP---TLLSPILSLSLLG----NHEEDSRTG

Query:  LSGRGAAVGIGNV
        ++ R   +G+G V
Subjt:  LSGRGAAVGIGNV

A0A2S1U693 DNA-directed RNA polymerase subunit beta''

2.2e-22

62.83

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

Query:  LSGRGAAVGIGNV
        ++ R   VGIG V
Subjt:  LSGRGAAVGIGNV

A0A445C9K0 DNA-directed RNA polymerase subunit

6.5e-22

81.08

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Query:  MIDLPIQSNLREGLSLTEYIISCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIVGSPRATHTNPTLLSPILSL
        MIDLPIQSNLREGLSLTEYIISCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIV     TH N   LS  + +
Subjt:  MIDLPIQSNLREGLSLTEYIISCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIVGSPRATHTNPTLLSPILSL

A0A7J6DWT2 ATP-synt_C domain-containing protein

3.7e-33

80.85

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Query:  RLVEVVQHIVGSPRATHTNPTLLSPILSLSLLGNHEEDSRTGLSGRGAAVGIGNVFSSLIHSVARNPSLAKQSFGYAILGFALTEAIALFAPMM
        R+ ++ +H  GSPR THTNPTLLS I+SLSLLGNHEEDSRTGLSGRGAAVGIGNVFSSLIHSVARNPSLAKQ FGYAI GFALTEAIA+  P++
Subjt:  RLVEVVQHIVGSPRATHTNPTLLSPILSLSLLGNHEEDSRTGLSGRGAAVGIGNVFSSLIHSVARNPSLAKQSFGYAILGFALTEAIALFAPMM

A9XWC9 DNA-directed RNA polymerase (Fragment)

2.2e-22

64.22

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Query:  MIDLPIQSNLREGLSLTEYIISCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIV------GSPRATHTNP-TLLSPILSLSLLGNHEEDS----RTGLS
        MIDLPIQSNLREGLSLTEYIISCYGARKGVVDTAVRT+DAGYLTRRLVEVVQHIV      G+ RA   +P T+ + ILS +L+G    DS       ++
Subjt:  MIDLPIQSNLREGLSLTEYIISCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIV------GSPRATHTNP-TLLSPILSLSLLGNHEEDS----RTGLS

Query:  GRGAAVGIG
         R   +GIG
Subjt:  GRGAAVGIG

SwissProt top hits

e value

%identity

Alignment

Q0G9M9 DNA-directed RNA polymerase subunit beta''

1.5e-23

62.5

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Query:  MIDLPIQSNLREGLSLTEYIISCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIV------GSPRATHTNPT--LLSPILSLSLLGN-HEEDSRTGL---
        MIDLPIQSNLREGLSLTEYIISCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIV      G+ R    +P   +   IL  +L+G    +D   GL   
Subjt:  MIDLPIQSNLREGLSLTEYIISCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIV------GSPRATHTNPT--LLSPILSLSLLGN-HEEDSRTGL---

Query:  SGRGAAVGIGNV
        + R   +GIG V
Subjt:  SGRGAAVGIGNV

Q2L8Z5 DNA-directed RNA polymerase subunit beta''

1.9e-23

72.41

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Query:  MIDLPIQSNLREGLSLTEYIISCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIV------GSPRATHTNP---TLLSPILSLSLLG
        MIDLPIQSNLREGLSLTEYIISCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIV      G+ R    +P   TL   I   +L+G
Subjt:  MIDLPIQSNLREGLSLTEYIISCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIV------GSPRATHTNP---TLLSPILSLSLLG

Q2MIB0 DNA-directed RNA polymerase subunit beta''

5.1e-24

61.06

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

Query:  LSGRGAAVGIGNV
        ++ R  A+GIG V
Subjt:  LSGRGAAVGIGNV

Q2MIJ7 DNA-directed RNA polymerase subunit beta''

5.1e-24

61.06

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

Query:  LSGRGAAVGIGNV
        ++ R  A+GIG V
Subjt:  LSGRGAAVGIGNV

Q2VEI6 DNA-directed RNA polymerase subunit beta''

5.1e-24

61.06

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

Query:  LSGRGAAVGIGNV
        ++ R  A+GIG V
Subjt:  LSGRGAAVGIGNV

Arabidopsis top hits

e value

%identity

Alignment

AT2G07671.1 ATP synthase subunit C family protein

1.0e-19

90.57

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Query:  LSGRGAAVGIGNVFSSLIHSVARNPSLAKQSFGYAILGFALTEAIALFAPMMA
        ++  GAA+GIGNVFSSLIHSVARNPSLAKQSFGYAILGFALTEAIALFAPMMA
Subjt:  LSGRGAAVGIGNVFSSLIHSVARNPSLAKQSFGYAILGFALTEAIALFAPMMA

AT4G35800.1 RNA polymerase II large subunit

1.4e-05

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

ATCG00170.1 DNA-directed RNA polymerase family protein

3.1e-24

100

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Query:  MIDLPIQSNLREGLSLTEYIISCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIV
        MIDLPIQSNLREGLSLTEYIISCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIV
Subjt:  MIDLPIQSNLREGLSLTEYIISCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIV

ATMG00040.1 ATP synthase subunit C family protein

6.5e-06

82.14

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Query:  LSGRGAAVGIGNVFSSLIHSVARNPSLA
        ++  GAA+GIGNVFSSLIHSVARNPSLA
Subjt:  LSGRGAAVGIGNVFSSLIHSVARNPSLA

ATMG01080.1 mitochondrial F0-ATPase subunit 9

1.0e-19

90.57

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Query:  LSGRGAAVGIGNVFSSLIHSVARNPSLAKQSFGYAILGFALTEAIALFAPMMA
        ++  GAA+GIGNVFSSLIHSVARNPSLAKQSFGYAILGFALTEAIALFAPMMA
Subjt:  LSGRGAAVGIGNVFSSLIHSVARNPSLAKQSFGYAILGFALTEAIALFAPMMA

Sequences

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CDS sequence

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ATGATTGATTTACCCATTCAAAGCAATTTACGTGAGGGGCTGTCCTTAACGGAATATATAATTTCTTGCTACGGAGCGCGGAAAGGAGTTGTGGATACTGCTGTACGAAC
ATCGGATGCTGGATATCTTACACGCAGACTTGTTGAAGTAGTTCAACACATTGTTGGTAGCCCGCGCGCGACCCATACCAATCCTACACTCCTTTCTCCTATTCTTTCTT
TGTCACTTCTTGGAAATCACGAAGAGGATTCTCGGACTGGACTGAGCGGGAGGGGAGCTGCTGTCGGTATTGGAAACGTTTTCAGTTCATTAATTCATTCCGTGGCGCGA
AATCCATCATTGGCTAAACAATCATTTGGTTATGCCATTTTGGGCTTTGCTCTAACCGAAGCTATTGCATTGTTTGCTCCAATGATGGCCGGTCAAATCAGGAAGAAACA
AGTCAAATTGACCCGTTCCATTCGCACCACAAGCTTTTTGCCGGATCAGCATCCAATATTCAAAGTTTCGGCTCTTCCTGTGCCTGAATTACTACAGCGCCTTACCGTCT
GGTCTTCATTGGTATTTGCTTTTTGCTCACCCACTACGTTTTTTTTTCGTTTTTCCCCCGCCCGGTCGAGCTGTCTGAGGTCGATGGTGCATCCGGTAAGCTCTTTCGGT
ATTCATCTCCAGAGCCCGCCCGGATCACCAGCTAAGGCCCCTAAATGA

mRNA sequence

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Protein sequence

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MIDLPIQSNLREGLSLTEYIISCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIVGSPRATHTNPTLLSPILSLSLLGNHEEDSRTGLSGRGAAVGIGNVFSSLIHSVAR
NPSLAKQSFGYAILGFALTEAIALFAPMMAGQIRKKQVKLTRSIRTTSFLPDQHPIFKVSALPVPELLQRLTVWSSLVFAFCSPTTFFFRFSPARSSCLRSMVHPVSSFG
IHLQSPPGSPAKAPK

Clc11G08370 (gene) of Watermelon (cordophanus) v2 genome