HG10017188 (gene) Bottle gourd (Hangzhou Gourd) v1

Overview


Name	HG10017188
Type	gene
Organism	Lagenaria siceraria cv. Hangzhou Gourd (Bottle gourd (Hangzhou Gourd) v1)
Description	DNA-directed RNA polymerase subunit beta''
Location	Chr03: 11786403 .. 11786615 (-)
RNA-Seq Expression	HG10017188
Synteny	HG10017188

Sequences

The following sequences are available for this feature:

Gene sequence (with intron)

Legend: CDSpolypeptide

Hold the cursor over a type above to highlight its positions in the sequence below.

ATGGAGGTACTTATGGCGGAACGGGCCGATCTGGTCTTTCACAATAAAGTGATAGATGGAACTGCCATTAAACAACTTATTAGCAGATTAATAGATCACTTCGGAATGGCATATACATCACACATCCTGGATCAACTAAAGACTCTGGGGTTCCAGCAGGCCACTGCTACATCCATTTCATTAGGAATTTATGATCTTTTAACAATCCCTTAG

mRNA sequence

ATGGAGGTACTTATGGCGGAACGGGCCGATCTGGTCTTTCACAATAAAGTGATAGATGGAACTGCCATTAAACAACTTATTAGCAGATTAATAGATCACTTCGGAATGGCATATACATCACACATCCTGGATCAACTAAAGACTCTGGGGTTCCAGCAGGCCACTGCTACATCCATTTCATTAGGAATTTATGATCTTTTAACAATCCCTTAG

Coding sequence (CDS)

ATGGAGGTACTTATGGCGGAACGGGCCGATCTGGTCTTTCACAATAAAGTGATAGATGGAACTGCCATTAAACAACTTATTAGCAGATTAATAGATCACTTCGGAATGGCATATACATCACACATCCTGGATCAACTAAAGACTCTGGGGTTCCAGCAGGCCACTGCTACATCCATTTCATTAGGAATTTATGATCTTTTAACAATCCCTTAG

Protein sequence

MEVLMAERADLVFHNKVIDGTAIKQLISRLIDHFGMAYTSHILDQLKTLGFQQATATSISLGIYDLLTIP

Homology

[Close]

BLAST of HG10017188 vs. NCBI nr
Match: YP_004841773.1 (RNA polymerase beta'' subunit [Cucumis melo subsp. melo] >YP_009860063.1 RNA polymerase beta'' subunit [Cucumis melo subsp. agrestis] >ASY96578.1 RNA polymerase beta'' subunit [Cucumis melo var. conomon] >ASY96665.1 RNA polymerase beta'' subunit [Cucumis melo var. makuwa] >ASY96839.1 RNA polymerase beta'' subunit [Cucumis melo var. dudaim] >ASY97100.1 RNA polymerase beta'' subunit [Cucumis melo var. inodorus] >AEM76882.1 RNA polymerase beta'' subunit [Cucumis melo subsp. melo])

HSP 1 Score: 132.5 bits (332), Expect = 1.4e-27
Identity = 68/70 (97.14%), Postives = 69/70 (98.57%), Query Frame = 0


Query: 1  MEVLMAERADLVFHNKVIDGTAIKQLISRLIDHFGMAYTSHILDQLKTLGFQQATATSIS 60
          MEVLMAERADLVFHNKVIDGTAIK+LISRLIDHFGMAYTSHILDQLKTLGFQQATATSIS
Sbjct: 1  MEVLMAERADLVFHNKVIDGTAIKRLISRLIDHFGMAYTSHILDQLKTLGFQQATATSIS 60

Query: 61 LGIYDLLTIP 71
          LGI DLLTIP
Sbjct: 61 LGIDDLLTIP 70

[Close]

BLAST of HG10017188 vs. NCBI nr
Match: APW82621.1 (RNA polymerase beta'' subunit [Citrullus lanatus subsp. vulgaris])

HSP 1 Score: 132.5 bits (332), Expect = 1.4e-27
Identity = 68/70 (97.14%), Postives = 69/70 (98.57%), Query Frame = 0


Query: 1  MEVLMAERADLVFHNKVIDGTAIKQLISRLIDHFGMAYTSHILDQLKTLGFQQATATSIS 60
          MEVLMAERADLVFHNKVIDGTAIK+LISRLIDHFGMAYTSHILDQLKTLGFQQATATSIS
Sbjct: 1  MEVLMAERADLVFHNKVIDGTAIKRLISRLIDHFGMAYTSHILDQLKTLGFQQATATSIS 60

Query: 61 LGIYDLLTIP 71
          LGI DLLTIP
Sbjct: 61 LGIDDLLTIP 70

[Close]

BLAST of HG10017188 vs. NCBI nr
Match: YP_009431632.1 (RNA polymerase beta'' subunit [Citrullus rehmii] >ASY96233.1 RNA polymerase beta'' subunit [Citrullus rehmii])

HSP 1 Score: 132.5 bits (332), Expect = 1.4e-27
Identity = 68/70 (97.14%), Postives = 69/70 (98.57%), Query Frame = 0


Query: 1  MEVLMAERADLVFHNKVIDGTAIKQLISRLIDHFGMAYTSHILDQLKTLGFQQATATSIS 60
          MEVLMAERADLVFHNKVIDGTAIK+LISRLIDHFGMAYTSHILDQLKTLGFQQATATSIS
Sbjct: 1  MEVLMAERADLVFHNKVIDGTAIKRLISRLIDHFGMAYTSHILDQLKTLGFQQATATSIS 60

Query: 61 LGIYDLLTIP 71
          LGI DLLTIP
Sbjct: 61 LGIDDLLTIP 70

[Close]

BLAST of HG10017188 vs. NCBI nr
Match: YP_009420784.1 (RNA polymerase beta'' subunit [Citrullus colocynthis] >ASP44453.1 RNA polymerase beta'' subunit [Citrullus colocynthis])

HSP 1 Score: 132.5 bits (332), Expect = 1.4e-27
Identity = 68/70 (97.14%), Postives = 69/70 (98.57%), Query Frame = 0


Query: 1  MEVLMAERADLVFHNKVIDGTAIKQLISRLIDHFGMAYTSHILDQLKTLGFQQATATSIS 60
          MEVLMAERADLVFHNKVIDGTAIK+LISRLIDHFGMAYTSHILDQLKTLGFQQATATSIS
Sbjct: 1  MEVLMAERADLVFHNKVIDGTAIKRLISRLIDHFGMAYTSHILDQLKTLGFQQATATSIS 60

Query: 61 LGIYDLLTIP 71
          LGI DLLTIP
Sbjct: 61 LGIDDLLTIP 70

[Close]

BLAST of HG10017188 vs. NCBI nr
Match: YP_009431547.1 (RNA polymerase beta'' subunit [Citrullus amarus] >APW82536.1 RNA polymerase beta'' subunit [Citrullus lanatus subsp. vulgaris] >ASY96148.1 RNA polymerase beta'' subunit [Citrullus amarus])

HSP 1 Score: 132.5 bits (332), Expect = 1.4e-27
Identity = 68/70 (97.14%), Postives = 69/70 (98.57%), Query Frame = 0


Query: 1  MEVLMAERADLVFHNKVIDGTAIKQLISRLIDHFGMAYTSHILDQLKTLGFQQATATSIS 60
          MEVLMAERADLVFHNKVIDGTAIK+LISRLIDHFGMAYTSHILDQLKTLGFQQATATSIS
Sbjct: 1  MEVLMAERADLVFHNKVIDGTAIKRLISRLIDHFGMAYTSHILDQLKTLGFQQATATSIS 60

Query: 61 LGIYDLLTIP 71
          LGI DLLTIP
Sbjct: 61 LGIDDLLTIP 70

[Close]

BLAST of HG10017188 vs. ExPASy Swiss-Prot
Match: Q4VZP3 (DNA-directed RNA polymerase subunit beta'' OS=Cucumis sativus OX=3659 GN=rpoC2 PE=3 SV=1)

HSP 1 Score: 132.5 bits (332), Expect = 1.9e-30
Identity = 68/70 (97.14%), Postives = 69/70 (98.57%), Query Frame = 0


Query: 1  MEVLMAERADLVFHNKVIDGTAIKQLISRLIDHFGMAYTSHILDQLKTLGFQQATATSIS 60
          MEVLMAERADLVFHNKVIDGTAIK+LISRLIDHFGMAYTSHILDQLKTLGFQQATATSIS
Sbjct: 1  MEVLMAERADLVFHNKVIDGTAIKRLISRLIDHFGMAYTSHILDQLKTLGFQQATATSIS 60

Query: 61 LGIYDLLTIP 71
          LGI DLLTIP
Sbjct: 61 LGIDDLLTIP 70

[Close]

BLAST of HG10017188 vs. ExPASy Swiss-Prot
Match: Q06H07 (DNA-directed RNA polymerase subunit beta'' OS=Drimys granadensis OX=224735 GN=rpoC2 PE=3 SV=1)

HSP 1 Score: 129.4 bits (324), Expect = 1.6e-29
Identity = 65/70 (92.86%), Postives = 69/70 (98.57%), Query Frame = 0


Query: 1  MEVLMAERADLVFHNKVIDGTAIKQLISRLIDHFGMAYTSHILDQLKTLGFQQATATSIS 60
          MEVLMAERADLVFHNKVIDGTA+K+LISRLIDHFGMAYTSHILDQ+KT+GFQQATATSIS
Sbjct: 1  MEVLMAERADLVFHNKVIDGTAMKRLISRLIDHFGMAYTSHILDQVKTMGFQQATATSIS 60

Query: 61 LGIYDLLTIP 71
          LGI DLLTIP
Sbjct: 61 LGIDDLLTIP 70

[Close]

BLAST of HG10017188 vs. ExPASy Swiss-Prot
Match: Q9THV5 (DNA-directed RNA polymerase subunit beta'' OS=Sinapis alba OX=3728 GN=rpoC2 PE=1 SV=1)

HSP 1 Score: 129.4 bits (324), Expect = 1.6e-29
Identity = 66/70 (94.29%), Postives = 69/70 (98.57%), Query Frame = 0


Query: 1  MEVLMAERADLVFHNKVIDGTAIKQLISRLIDHFGMAYTSHILDQLKTLGFQQATATSIS 60
          MEVLMAERA+LVFHNKVIDGTAIK+LISRLIDHFGMAYTSHILDQ+KTLGFQQATATSIS
Sbjct: 1  MEVLMAERANLVFHNKVIDGTAIKRLISRLIDHFGMAYTSHILDQVKTLGFQQATATSIS 60

Query: 61 LGIYDLLTIP 71
          LGI DLLTIP
Sbjct: 61 LGIDDLLTIP 70

[Close]

BLAST of HG10017188 vs. ExPASy Swiss-Prot
Match: A8SE78 (DNA-directed RNA polymerase subunit beta'' OS=Ceratophyllum demersum OX=4428 GN=rpoC2 PE=3 SV=1)

HSP 1 Score: 128.6 bits (322), Expect = 2.7e-29
Identity = 65/70 (92.86%), Postives = 68/70 (97.14%), Query Frame = 0


Query: 1  MEVLMAERADLVFHNKVIDGTAIKQLISRLIDHFGMAYTSHILDQLKTLGFQQATATSIS 60
          MEVLMAERADLVFHNK IDGTA+K+LISRLIDHFGMAYTSHILDQ+KTLGFQQATATSIS
Sbjct: 1  MEVLMAERADLVFHNKAIDGTAMKRLISRLIDHFGMAYTSHILDQVKTLGFQQATATSIS 60

Query: 61 LGIYDLLTIP 71
          LGI DLLTIP
Sbjct: 61 LGIDDLLTIP 70

[Close]

BLAST of HG10017188 vs. ExPASy Swiss-Prot
Match: Q09G56 (DNA-directed RNA polymerase subunit beta'' OS=Platanus occidentalis OX=4403 GN=rpoC2 PE=3 SV=1)

HSP 1 Score: 128.6 bits (322), Expect = 2.7e-29
Identity = 65/70 (92.86%), Postives = 68/70 (97.14%), Query Frame = 0


Query: 1  MEVLMAERADLVFHNKVIDGTAIKQLISRLIDHFGMAYTSHILDQLKTLGFQQATATSIS 60
          MEVLMAERADLVFHNK IDGTA+K+LISRLIDHFGMAYTSHILDQ+KTLGFQQATATSIS
Sbjct: 1  MEVLMAERADLVFHNKAIDGTAMKRLISRLIDHFGMAYTSHILDQVKTLGFQQATATSIS 60

Query: 61 LGIYDLLTIP 71
          LGI DLLTIP
Sbjct: 61 LGIDDLLTIP 70

[Close]

BLAST of HG10017188 vs. ExPASy TrEMBL
Match: A0A1X9Q1J9 (DNA-directed RNA polymerase subunit beta'' OS=Cucumis sativus OX=3659 GN=rpoC2 PE=3 SV=1)

HSP 1 Score: 132.5 bits (332), Expect = 6.9e-28
Identity = 68/70 (97.14%), Postives = 69/70 (98.57%), Query Frame = 0


Query: 1  MEVLMAERADLVFHNKVIDGTAIKQLISRLIDHFGMAYTSHILDQLKTLGFQQATATSIS 60
          MEVLMAERADLVFHNKVIDGTAIK+LISRLIDHFGMAYTSHILDQLKTLGFQQATATSIS
Sbjct: 1  MEVLMAERADLVFHNKVIDGTAIKRLISRLIDHFGMAYTSHILDQLKTLGFQQATATSIS 60

Query: 61 LGIYDLLTIP 71
          LGI DLLTIP
Sbjct: 61 LGIDDLLTIP 70

[Close]

BLAST of HG10017188 vs. ExPASy TrEMBL
Match: A0A249RZW9 (DNA-directed RNA polymerase subunit beta'' OS=Cucumis melo var. cantalupensis OX=3658 GN=rpoC2 PE=3 SV=1)

HSP 1 Score: 132.5 bits (332), Expect = 6.9e-28
Identity = 68/70 (97.14%), Postives = 69/70 (98.57%), Query Frame = 0


Query: 1  MEVLMAERADLVFHNKVIDGTAIKQLISRLIDHFGMAYTSHILDQLKTLGFQQATATSIS 60
          MEVLMAERADLVFHNKVIDGTAIK+LISRLIDHFGMAYTSHILDQLKTLGFQQATATSIS
Sbjct: 1  MEVLMAERADLVFHNKVIDGTAIKRLISRLIDHFGMAYTSHILDQLKTLGFQQATATSIS 60

Query: 61 LGIYDLLTIP 71
          LGI DLLTIP
Sbjct: 61 LGIDDLLTIP 70

[Close]

BLAST of HG10017188 vs. ExPASy TrEMBL
Match: A0A1P8LFL6 (DNA-directed RNA polymerase OS=Citrullus mucosospermus OX=519315 GN=rpoC2 PE=3 SV=1)

HSP 1 Score: 132.5 bits (332), Expect = 6.9e-28
Identity = 68/70 (97.14%), Postives = 69/70 (98.57%), Query Frame = 0


Query: 1  MEVLMAERADLVFHNKVIDGTAIKQLISRLIDHFGMAYTSHILDQLKTLGFQQATATSIS 60
          MEVLMAERADLVFHNKVIDGTAIK+LISRLIDHFGMAYTSHILDQLKTLGFQQATATSIS
Sbjct: 1  MEVLMAERADLVFHNKVIDGTAIKRLISRLIDHFGMAYTSHILDQLKTLGFQQATATSIS 60

Query: 61 LGIYDLLTIP 71
          LGI DLLTIP
Sbjct: 61 LGIDDLLTIP 70

[Close]

BLAST of HG10017188 vs. ExPASy TrEMBL
Match: A0A249RXP5 (DNA-directed RNA polymerase subunit beta'' OS=Cucumis melo subsp. agrestis OX=217619 GN=rpoC2 PE=3 SV=1)

HSP 1 Score: 132.5 bits (332), Expect = 6.9e-28
Identity = 68/70 (97.14%), Postives = 69/70 (98.57%), Query Frame = 0


Query: 1  MEVLMAERADLVFHNKVIDGTAIKQLISRLIDHFGMAYTSHILDQLKTLGFQQATATSIS 60
          MEVLMAERADLVFHNKVIDGTAIK+LISRLIDHFGMAYTSHILDQLKTLGFQQATATSIS
Sbjct: 1  MEVLMAERADLVFHNKVIDGTAIKRLISRLIDHFGMAYTSHILDQLKTLGFQQATATSIS 60

Query: 61 LGIYDLLTIP 71
          LGI DLLTIP
Sbjct: 61 LGIDDLLTIP 70

[Close]

BLAST of HG10017188 vs. ExPASy TrEMBL
Match: A0A286NFX2 (DNA-directed RNA polymerase subunit beta'' OS=Cucumis melo var. flexuosus OX=1120798 GN=rpoC2 PE=3 SV=1)

HSP 1 Score: 132.5 bits (332), Expect = 6.9e-28
Identity = 68/70 (97.14%), Postives = 69/70 (98.57%), Query Frame = 0


Query: 1  MEVLMAERADLVFHNKVIDGTAIKQLISRLIDHFGMAYTSHILDQLKTLGFQQATATSIS 60
          MEVLMAERADLVFHNKVIDGTAIK+LISRLIDHFGMAYTSHILDQLKTLGFQQATATSIS
Sbjct: 1  MEVLMAERADLVFHNKVIDGTAIKRLISRLIDHFGMAYTSHILDQLKTLGFQQATATSIS 60

Query: 61 LGIYDLLTIP 71
          LGI DLLTIP
Sbjct: 61 LGIDDLLTIP 70

[Close]

BLAST of HG10017188 vs. TAIR 10
Match: ATCG00170.1 (DNA-directed RNA polymerase family protein )

HSP 1 Score: 122.9 bits (307), Expect = 1.0e-28
Identity = 62/66 (93.94%), Postives = 65/66 (98.48%), Query Frame = 0


Query: 5  MAERADLVFHNKVIDGTAIKQLISRLIDHFGMAYTSHILDQLKTLGFQQATATSISLGIY 64
          MAERA+LVFHNKVIDGTAIK+LISRLIDHFGMAYTSHILDQ+KTLGFQQATATSISLGI 
Sbjct: 1  MAERANLVFHNKVIDGTAIKRLISRLIDHFGMAYTSHILDQVKTLGFQQATATSISLGID 60

Query: 65 DLLTIP 71
          DLLTIP
Sbjct: 61 DLLTIP 66

The following BLAST results are available for this feature:

BLAST of HG10017188 vs. NCBI nr


Match Name	E-value	Identity	Description
YP_004841773.1	1.4e-27	97.14	RNA polymerase beta'' subunit [Cucumis melo subsp. melo] >YP_009860063.1 RNA pol...	[more]
APW82621.1	1.4e-27	97.14	RNA polymerase beta'' subunit [Citrullus lanatus subsp. vulgaris]	[more]
YP_009431632.1	1.4e-27	97.14	RNA polymerase beta'' subunit [Citrullus rehmii] >ASY96233.1 RNA polymerase beta...	[more]
YP_009420784.1	1.4e-27	97.14	RNA polymerase beta'' subunit [Citrullus colocynthis] >ASP44453.1 RNA polymerase...	[more]
YP_009431547.1	1.4e-27	97.14	RNA polymerase beta'' subunit [Citrullus amarus] >APW82536.1 RNA polymerase beta...	[more]

BLAST of HG10017188 vs. ExPASy Swiss-Prot


Match Name	E-value	Identity	Description
Q4VZP3	1.9e-30	97.14	DNA-directed RNA polymerase subunit beta'' OS=Cucumis sativus OX=3659 GN=rpoC2 P...	[more]
Q06H07	1.6e-29	92.86	DNA-directed RNA polymerase subunit beta'' OS=Drimys granadensis OX=224735 GN=rp...	[more]
Q9THV5	1.6e-29	94.29	DNA-directed RNA polymerase subunit beta'' OS=Sinapis alba OX=3728 GN=rpoC2 PE=1...	[more]
A8SE78	2.7e-29	92.86	DNA-directed RNA polymerase subunit beta'' OS=Ceratophyllum demersum OX=4428 GN=...	[more]
Q09G56	2.7e-29	92.86	DNA-directed RNA polymerase subunit beta'' OS=Platanus occidentalis OX=4403 GN=r...	[more]

BLAST of HG10017188 vs. ExPASy TrEMBL


Match Name	E-value	Identity	Description
A0A1X9Q1J9	6.9e-28	97.14	DNA-directed RNA polymerase subunit beta'' OS=Cucumis sativus OX=3659 GN=rpoC2 P...	[more]
A0A249RZW9	6.9e-28	97.14	DNA-directed RNA polymerase subunit beta'' OS=Cucumis melo var. cantalupensis OX...	[more]
A0A1P8LFL6	6.9e-28	97.14	DNA-directed RNA polymerase OS=Citrullus mucosospermus OX=519315 GN=rpoC2 PE=3 S...	[more]
A0A249RXP5	6.9e-28	97.14	DNA-directed RNA polymerase subunit beta'' OS=Cucumis melo subsp. agrestis OX=21...	[more]
A0A286NFX2	6.9e-28	97.14	DNA-directed RNA polymerase subunit beta'' OS=Cucumis melo var. flexuosus OX=112...	[more]

BLAST of HG10017188 vs. TAIR 10


Match Name	E-value	Identity	Description
ATCG00170.1	1.0e-28	93.94	DNA-directed RNA polymerase family protein	[more]

InterPro

Analysis Name: InterPro Annotations of Bottle gourd (Hangzhou Gourd) v1
Date Performed: 2022-08-01


IPR Term	IPR Description	Source	Source Term	Source Description	Alignment
IPR042102	RNA polymerase Rpb1, domain 3 superfamily	GENE3D	1.10.274.100	RNA polymerase Rpb1, domain 3	coord: 2..65 e-value: 1.4E-12 score: 50.0
None	No IPR available	PANTHER	PTHR19376:SF47	DNA-DIRECTED RNA POLYMERASE SUBUNIT BETA''	coord: 5..70
None	No IPR available	PANTHER	PTHR19376	DNA-DIRECTED RNA POLYMERASE	coord: 5..70
None	No IPR available	SUPERFAMILY	64484	beta and beta-prime subunits of DNA dependent RNA-polymerase	coord: 13..68

Relationships

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


Feature Name	Unique Name	Type
HG10017188.1	HG10017188.1	mRNA

GO Annotation

GO Assignments

This gene is annotated with the following GO terms.

Category	Term Accession	Term Name
biological_process	GO:0006351	transcription, DNA-templated
cellular_component	GO:0009507	chloroplast
molecular_function	GO:0003677	DNA binding
molecular_function	GO:0003899	DNA-directed 5'-3' RNA polymerase activity
molecular_function	GO:0008270	zinc ion binding