ClCG05G015590 (gene) Watermelon (Charleston Gray)

Overview
NameClCG05G015590
Typegene
OrganismCitrullus lanatus (Watermelon (Charleston Gray))
DescriptionDNA-directed RNA polymerase subunit beta
LocationCG_Chr05 : 27462278 .. 27462993 (+)
Genome Viewer
Sequences
The following sequences are available for this feature:

Gene sequence (with intron)

Legend: CDS
Hold the cursor over a type above to highlight its positions in the sequence below.
ATGAGGTTTGTTCCTCCTGCGTCTGCTTGCTACTCCCGCTTTCTCTTCCTTGATCGTAGTCCGGTATTTTCTGAATCCTTATGTAAGGAATTACAAAAGAAATTCTTTCAACAAAGATGTGAATTAGGAAGGATTGGTCGACGAAATCTGAACCAGAGACTGAATCTTGATATACCTGAGAACAATACATTTTTGTTACCGCGAGATATATTGGCAGCTGCAGATCATTTGATTGGACTGAAATTTTGAATGGGTACACTGAACGAGGACCTACAGGAAGAAGTTTACATGAGTCCTCCCCCCGGTTGTGTAAGGGGGAGGAGAACAAGAGAGGTCAACTGGAGTGGAAGCCAAACGACGGGGCCGAGAATCAGTGATCGATCCGAAGAACCCCTCAGCCTCAGCGTATTATATTAAGTAAATCTAGGTCTTGTCTGTAAGGAAGATACCTGAGGAGGCGAGTGAGCGATCAAGCGGAAAAGGACTAAGAAAAGCAGGCAAAAGGCTAGAAGATCAACTGGTCAAATCAATCCCCCTTGAAACAACATTAACGGGAAATACATCATCCATAAACGAGCTTAAAACTAACCCCCTATGAATTAGTTCTAAGAAAGGAATGCGATAACCAGAGAGAGAAGGCACGGGCGATGGGCCCCATACATCAGAATGCAAAAGGGCGGAGAGAATTGAAACAAGAAGAAGATTGGAATTGGTAG

mRNA sequence

ATGAGGTTTGTTCCTCCTGCGTCTGCTTGCTACTCCCGCTTTCTCTTCCTTGATCGTAGTCCGGTATTTTCTGAATCCTTATGTAAGGAATTACAAAAGAAATTCTTTCAACAAAGATGTGAATTAGGAAGGATTGGTCGACGAAATCTGAACCAGAGACTGAATCTTGATATACCTGAGAACAATACATTTTTATCATTTGATTGGACTGAAATTTTGAATGGGTACACTGAACGAGGACCTACAGGAAGAAGTTTACATGAGTCAACTGGAGTGGAAGCCAAACGACGGGGCCGAGAATCAGTGATCGATCCGAAGAACCCCTCAGCCTCAGCGAAGATACCTGAGGAGGCGAGTGAGCGATCAAGCGGAAAAGGACTAAGAAAAGCAGGCAAAAGGCTAGAAGATCAACTGAGAGAGAAGGCACGGGCGATGGGCCCCATACATCAGAATGCAAAAGGGCGGAGAGAATTGAAACAAGAAGAAGATTGGAATTGGTAG

Coding sequence (CDS)

ATGAGGTTTGTTCCTCCTGCGTCTGCTTGCTACTCCCGCTTTCTCTTCCTTGATCGTAGTCCGGTATTTTCTGAATCCTTATGTAAGGAATTACAAAAGAAATTCTTTCAACAAAGATGTGAATTAGGAAGGATTGGTCGACGAAATCTGAACCAGAGACTGAATCTTGATATACCTGAGAACAATACATTTTTATCATTTGATTGGACTGAAATTTTGAATGGGTACACTGAACGAGGACCTACAGGAAGAAGTTTACATGAGTCAACTGGAGTGGAAGCCAAACGACGGGGCCGAGAATCAGTGATCGATCCGAAGAACCCCTCAGCCTCAGCGAAGATACCTGAGGAGGCGAGTGAGCGATCAAGCGGAAAAGGACTAAGAAAAGCAGGCAAAAGGCTAGAAGATCAACTGAGAGAGAAGGCACGGGCGATGGGCCCCATACATCAGAATGCAAAAGGGCGGAGAGAATTGAAACAAGAAGAAGATTGGAATTGGTAG

Protein sequence

MRFVPPASACYSRFLFLDRSPVFSESLCKELQKKFFQQRCELGRIGRRNLNQRLNLDIPENNTFLSFDWTEILNGYTERGPTGRSLHESTGVEAKRRGRESVIDPKNPSASAKIPEEASERSSGKGLRKAGKRLEDQLREKARAMGPIHQNAKGRRELKQEEDWNW
Homology
[Close]
BLAST of ClCG05G015590 vs. Swiss-Prot
Match: RPOB_CUCSA (DNA-directed RNA polymerase subunit beta OS=Cucumis sativus GN=rpoB PE=3 SV=2)

HSP 1 Score: 99.0 bits (245), Expect = 5.2e-20
Identity = 47/55 (85.45%), Postives = 47/55 (85.45%), Query Frame = 1 

Query: 11  YSRFLFLDRSPVFSESLCKELQKKFFQQRCELGRIGRRNLNQRLNLDIPENNTFL 66
           Y +F  +   PVFSESLCKELQKKFFQQRCELGRIGRRNLNQRLNLDIPENNTFL
Sbjct: 227 YQQFSCVGGDPVFSESLCKELQKKFFQQRCELGRIGRRNLNQRLNLDIPENNTFL 281

[Close]
BLAST of ClCG05G015590 vs. Swiss-Prot
Match: RPOB_LEMMI (DNA-directed RNA polymerase subunit beta OS=Lemna minor GN=rpoB PE=3 SV=1)

HSP 1 Score: 96.7 bits (239), Expect = 2.6e-19
Identity = 45/55 (81.82%), Postives = 46/55 (83.64%), Query Frame = 1 

Query: 11  YSRFLFLDRSPVFSESLCKELQKKFFQQRCELGRIGRRNLNQRLNLDIPENNTFL 66
           Y +F  +   PVFSESLCKELQKKFFQQRCELGRIGRRN+NQRLNLDIP NNTFL
Sbjct: 227 YQQFACVGGDPVFSESLCKELQKKFFQQRCELGRIGRRNINQRLNLDIPHNNTFL 281

[Close]
BLAST of ClCG05G015590 vs. Swiss-Prot
Match: RPOB_NYMAL (DNA-directed RNA polymerase subunit beta OS=Nymphaea alba GN=rpoB PE=3 SV=1)

HSP 1 Score: 96.7 bits (239), Expect = 2.6e-19
Identity = 45/55 (81.82%), Postives = 46/55 (83.64%), Query Frame = 1 

Query: 11  YSRFLFLDRSPVFSESLCKELQKKFFQQRCELGRIGRRNLNQRLNLDIPENNTFL 66
           Y +F  +   PVFSESLCKELQKKFFQQRCELGRIGRRN+NQRLNLDIP NNTFL
Sbjct: 228 YQKFACVGGDPVFSESLCKELQKKFFQQRCELGRIGRRNMNQRLNLDIPPNNTFL 282

[Close]
BLAST of ClCG05G015590 vs. Swiss-Prot
Match: RPOB_ATRBE (DNA-directed RNA polymerase subunit beta OS=Atropa belladonna GN=rpoB PE=3 SV=1)

HSP 1 Score: 96.3 bits (238), Expect = 3.4e-19
Identity = 44/55 (80.00%), Postives = 47/55 (85.45%), Query Frame = 1 

Query: 11  YSRFLFLDRSPVFSESLCKELQKKFFQQRCELGRIGRRNLNQRLNLDIPENNTFL 66
           Y +F  +   PVFSESLCKELQKKFFQQRCELGRIGRRN+N+RLNLDIP+NNTFL
Sbjct: 227 YQQFACVSGDPVFSESLCKELQKKFFQQRCELGRIGRRNMNRRLNLDIPQNNTFL 281

[Close]
BLAST of ClCG05G015590 vs. Swiss-Prot
Match: RPOB_VITVI (DNA-directed RNA polymerase subunit beta OS=Vitis vinifera GN=rpoB PE=3 SV=1)

HSP 1 Score: 95.9 bits (237), Expect = 4.4e-19
Identity = 44/55 (80.00%), Postives = 47/55 (85.45%), Query Frame = 1 

Query: 11  YSRFLFLDRSPVFSESLCKELQKKFFQQRCELGRIGRRNLNQRLNLDIPENNTFL 66
           Y +F  +   PVFSESLCKELQKKFFQQRCELGRIGRRN+N+RLNLDIP+NNTFL
Sbjct: 227 YQQFACVGGDPVFSESLCKELQKKFFQQRCELGRIGRRNINRRLNLDIPQNNTFL 281

[Close]
BLAST of ClCG05G015590 vs. TrEMBL
Match: A0A0A0M3D4_CUCSA (Uncharacterized protein OS=Cucumis sativus GN=Csa_1G673530 PE=3 SV=1)

HSP 1 Score: 102.1 bits (253), Expect = 6.9e-19
Identity = 49/63 (77.78%), Postives = 52/63 (82.54%), Query Frame = 1 

Query: 3  FVPPASACYSRFLFLDRSPVFSESLCKELQKKFFQQRCELGRIGRRNLNQRLNLDIPENN 62
          F P   + Y +F  +   PVFSESLCKELQKKFFQQRCELGRIGRRNLNQRLNLDIPENN
Sbjct: 22 FTPKRISFYQQFSCVGGDPVFSESLCKELQKKFFQQRCELGRIGRRNLNQRLNLDIPENN 81

Query: 63 TFL 66
          TFL
Sbjct: 82 TFL 84

[Close]
BLAST of ClCG05G015590 vs. TrEMBL
Match: X2F7M7_LAGSI (DNA-directed RNA polymerase subunit beta OS=Lagenaria siceraria GN=rpoB PE=3 SV=1)

HSP 1 Score: 99.0 bits (245), Expect = 5.8e-18
Identity = 47/55 (85.45%), Postives = 49/55 (89.09%), Query Frame = 1 

Query: 11  YSRFLFLDRSPVFSESLCKELQKKFFQQRCELGRIGRRNLNQRLNLDIPENNTFL 66
           Y +F  +   PVFSESLCKELQKKFFQQRCELGRIGRRNLNQRLNLDIPENNTFL
Sbjct: 227 YQQFSCVGGDPVFSESLCKELQKKFFQQRCELGRIGRRNLNQRLNLDIPENNTFL 281

[Close]
BLAST of ClCG05G015590 vs. TrEMBL
Match: A0A0S2IF39_9ROSI (DNA-directed RNA polymerase subunit beta OS=Cucurbita ecuadorensis GN=rpoB PE=3 SV=1)

HSP 1 Score: 99.0 bits (245), Expect = 5.8e-18
Identity = 47/55 (85.45%), Postives = 49/55 (89.09%), Query Frame = 1 

Query: 11  YSRFLFLDRSPVFSESLCKELQKKFFQQRCELGRIGRRNLNQRLNLDIPENNTFL 66
           Y +F  +   PVFSESLCKELQKKFFQQRCELGRIGRRNLNQRLNLDIPENNTFL
Sbjct: 227 YQQFSCVGGDPVFSESLCKELQKKFFQQRCELGRIGRRNLNQRLNLDIPENNTFL 281

[Close]
BLAST of ClCG05G015590 vs. TrEMBL
Match: A0A0S2IGB8_CUCPE (DNA-directed RNA polymerase subunit beta OS=Cucurbita pepo var. ozarkana GN=rpoB PE=3 SV=1)

HSP 1 Score: 99.0 bits (245), Expect = 5.8e-18
Identity = 47/55 (85.45%), Postives = 49/55 (89.09%), Query Frame = 1 

Query: 11  YSRFLFLDRSPVFSESLCKELQKKFFQQRCELGRIGRRNLNQRLNLDIPENNTFL 66
           Y +F  +   PVFSESLCKELQKKFFQQRCELGRIGRRNLNQRLNLDIPENNTFL
Sbjct: 227 YQQFSCVGGDPVFSESLCKELQKKFFQQRCELGRIGRRNLNQRLNLDIPENNTFL 281

[Close]
BLAST of ClCG05G015590 vs. TrEMBL
Match: A0A0S2IG32_CUCPE (DNA-directed RNA polymerase subunit beta OS=Cucurbita pepo subsp. ovifera GN=rpoB PE=3 SV=1)

HSP 1 Score: 99.0 bits (245), Expect = 5.8e-18
Identity = 47/55 (85.45%), Postives = 49/55 (89.09%), Query Frame = 1 

Query: 11  YSRFLFLDRSPVFSESLCKELQKKFFQQRCELGRIGRRNLNQRLNLDIPENNTFL 66
           Y +F  +   PVFSESLCKELQKKFFQQRCELGRIGRRNLNQRLNLDIPENNTFL
Sbjct: 227 YQQFSCVGGDPVFSESLCKELQKKFFQQRCELGRIGRRNLNQRLNLDIPENNTFL 281

[Close]
BLAST of ClCG05G015590 vs. TAIR10
Match: ATCG00190.1 (ATCG00190.1 RNA polymerase subunit beta)

HSP 1 Score: 87.8 bits (216), Expect = 6.8e-18
Identity = 40/55 (72.73%), Postives = 44/55 (80.00%), Query Frame = 1 

Query: 11  YSRFLFLDRSPVFSESLCKELQKKFFQQRCELGRIGRRNLNQRLNLDIPENNTFL 66
           Y +F  +   P+FSESLCKELQKKFF QRCELGRIGRRN+N RLNL+IP+NN FL
Sbjct: 227 YQQFSCVGGDPIFSESLCKELQKKFFHQRCELGRIGRRNINWRLNLNIPQNNIFL 281

[Close]
BLAST of ClCG05G015590 vs. NCBI nr
Match: gi|700211650|gb|KGN66746.1| (hypothetical protein Csa_1G673530 [Cucumis sativus])

HSP 1 Score: 102.1 bits (253), Expect = 9.9e-19
Identity = 49/63 (77.78%), Postives = 52/63 (82.54%), Query Frame = 1 

Query: 3  FVPPASACYSRFLFLDRSPVFSESLCKELQKKFFQQRCELGRIGRRNLNQRLNLDIPENN 62
          F P   + Y +F  +   PVFSESLCKELQKKFFQQRCELGRIGRRNLNQRLNLDIPENN
Sbjct: 22 FTPKRISFYQQFSCVGGDPVFSESLCKELQKKFFQQRCELGRIGRRNLNQRLNLDIPENN 81

Query: 63 TFL 66
          TFL
Sbjct: 82 TFL 84

[Close]
BLAST of ClCG05G015590 vs. NCBI nr
Match: gi|590000407|ref|YP_009004036.1| (RNA polymerase beta subunit [Cucumis hystrix])

HSP 1 Score: 99.0 bits (245), Expect = 8.3e-18
Identity = 47/55 (85.45%), Postives = 49/55 (89.09%), Query Frame = 1 

Query: 11  YSRFLFLDRSPVFSESLCKELQKKFFQQRCELGRIGRRNLNQRLNLDIPENNTFL 66
           Y +F  +   PVFSESLCKELQKKFFQQRCELGRIGRRNLNQRLNLDIPENNTFL
Sbjct: 227 YQQFSCVGGDPVFSESLCKELQKKFFQQRCELGRIGRRNLNQRLNLDIPENNTFL 281

[Close]
BLAST of ClCG05G015590 vs. NCBI nr
Match: gi|952954786|gb|ALO22144.1| (RpoB (plastid) [Cucurbita ficifolia])

HSP 1 Score: 99.0 bits (245), Expect = 8.3e-18
Identity = 47/55 (85.45%), Postives = 49/55 (89.09%), Query Frame = 1 

Query: 11  YSRFLFLDRSPVFSESLCKELQKKFFQQRCELGRIGRRNLNQRLNLDIPENNTFL 66
           Y +F  +   PVFSESLCKELQKKFFQQRCELGRIGRRNLNQRLNLDIPENNTFL
Sbjct: 227 YQQFSCVGGDPVFSESLCKELQKKFFQQRCELGRIGRRNLNQRLNLDIPENNTFL 281

[Close]
BLAST of ClCG05G015590 vs. NCBI nr
Match: gi|68164795|ref|YP_247591.1| (RNA polymerase beta subunit [Cucumis sativus])

HSP 1 Score: 99.0 bits (245), Expect = 8.3e-18
Identity = 47/55 (85.45%), Postives = 49/55 (89.09%), Query Frame = 1 

Query: 11  YSRFLFLDRSPVFSESLCKELQKKFFQQRCELGRIGRRNLNQRLNLDIPENNTFL 66
           Y +F  +   PVFSESLCKELQKKFFQQRCELGRIGRRNLNQRLNLDIPENNTFL
Sbjct: 227 YQQFSCVGGDPVFSESLCKELQKKFFQQRCELGRIGRRNLNQRLNLDIPENNTFL 281

[Close]
BLAST of ClCG05G015590 vs. NCBI nr
Match: gi|595646173|gb|AHM89620.1| (RNA polymerase beta subunit (chloroplast) [Lagenaria siceraria])

HSP 1 Score: 99.0 bits (245), Expect = 8.3e-18
Identity = 47/55 (85.45%), Postives = 49/55 (89.09%), Query Frame = 1 

Query: 11  YSRFLFLDRSPVFSESLCKELQKKFFQQRCELGRIGRRNLNQRLNLDIPENNTFL 66
           Y +F  +   PVFSESLCKELQKKFFQQRCELGRIGRRNLNQRLNLDIPENNTFL
Sbjct: 227 YQQFSCVGGDPVFSESLCKELQKKFFQQRCELGRIGRRNLNQRLNLDIPENNTFL 281

The following BLAST results are available for this feature:
BLAST of ClCG05G015590 vs. Swiss-Prot
Match NameE-valueIdentityDescription
RPOB_CUCSA5.2e-2085.45DNA-directed RNA polymerase subunit beta OS=Cucumis sativus GN=rpoB PE=3 SV=2[more]
RPOB_LEMMI2.6e-1981.82DNA-directed RNA polymerase subunit beta OS=Lemna minor GN=rpoB PE=3 SV=1[more]
RPOB_NYMAL2.6e-1981.82DNA-directed RNA polymerase subunit beta OS=Nymphaea alba GN=rpoB PE=3 SV=1[more]
RPOB_ATRBE3.4e-1980.00DNA-directed RNA polymerase subunit beta OS=Atropa belladonna GN=rpoB PE=3 SV=1[more]
RPOB_VITVI4.4e-1980.00DNA-directed RNA polymerase subunit beta OS=Vitis vinifera GN=rpoB PE=3 SV=1[more]
BLAST of ClCG05G015590 vs. TrEMBL
Match NameE-valueIdentityDescription
A0A0A0M3D4_CUCSA6.9e-1977.78Uncharacterized protein OS=Cucumis sativus GN=Csa_1G673530 PE=3 SV=1[more]
X2F7M7_LAGSI5.8e-1885.45DNA-directed RNA polymerase subunit beta OS=Lagenaria siceraria GN=rpoB PE=3 SV=... [more]
A0A0S2IF39_9ROSI5.8e-1885.45DNA-directed RNA polymerase subunit beta OS=Cucurbita ecuadorensis GN=rpoB PE=3 ... [more]
A0A0S2IGB8_CUCPE5.8e-1885.45DNA-directed RNA polymerase subunit beta OS=Cucurbita pepo var. ozarkana GN=rpoB... [more]
A0A0S2IG32_CUCPE5.8e-1885.45DNA-directed RNA polymerase subunit beta OS=Cucurbita pepo subsp. ovifera GN=rpo... [more]
BLAST of ClCG05G015590 vs. TAIR10
Match NameE-valueIdentityDescription
ATCG00190.16.8e-1872.73ATCG00190.1 RNA polymerase subunit beta[more]
BLAST of ClCG05G015590 vs. NCBI nr
Match NameE-valueIdentityDescription
gi|700211650|gb|KGN66746.1|9.9e-1977.78hypothetical protein Csa_1G673530 [Cucumis sativus][more]
gi|590000407|ref|YP_009004036.1|8.3e-1885.45RNA polymerase beta subunit [Cucumis hystrix][more]
gi|952954786|gb|ALO22144.1|8.3e-1885.45RpoB (plastid) [Cucurbita ficifolia][more]
gi|68164795|ref|YP_247591.1|8.3e-1885.45RNA polymerase beta subunit [Cucumis sativus][more]
gi|595646173|gb|AHM89620.1|8.3e-1885.45RNA polymerase beta subunit (chloroplast) [Lagenaria siceraria][more]
Annotated Terms
The following terms have been associated with this gene:
Vocabulary: INTERPRO
TermDefinition
IPR007642RNA_pol_Rpb2_2
Vocabulary: Biological Process
TermDefinition
GO:0006351transcription, DNA-templated
Vocabulary: Molecular Function
TermDefinition
GO:0003677DNA binding
GO:0003899DNA-directed RNA polymerase activity
GO Annotation
GO Assignments
This gene is annotated with the following GO terms.
Category Term Accession Term Name
biological_process GO:0006144 purine nucleobase metabolic process
biological_process GO:0006206 pyrimidine nucleobase metabolic process
biological_process GO:0006351 transcription, DNA-templated
cellular_component GO:0009507 chloroplast
cellular_component GO:0005730 nucleolus
molecular_function GO:0003677 DNA binding
molecular_function GO:0003899 DNA-directed RNA polymerase activity
molecular_function GO:0032549 ribonucleoside binding
Relationships

The following mRNA feature(s) are a part of this gene:

Feature NameUnique NameType
ClCG05G015590.1ClCG05G015590.1mRNA


InterPro
Analysis Name: InterPro Annotations of watermelon (Charleston Gray)
Date Performed: 2016-09-28
IPR TermIPR DescriptionSourceSource TermSource DescriptionAlignment
IPR007642RNA polymerase Rpb2, domain 2PFAMPF04561RNA_pol_Rpb2_2coord: 21..66
score: 2.

Synteny
The following gene(s) are orthologous to this gene:

None

The following gene(s) are paralogous to this gene:

None

The following block(s) are covering this gene:
GeneOrganismBlock
ClCG05G015590Watermelon (97103) v1wcgwmB285
ClCG05G015590Watermelon (97103) v2wcgwmbB229