MS017004 (gene) Bitter gourd (TR) v1

Overview


Name	MS017004
Type	gene
Organism	Momordica charantia cv. TR (Bitter gourd (TR) v1)
Description	DNA-directed RNA polymerase
Location	scaffold197: 582568 .. 582672 (-)
RNA-Seq Expression	MS017004
Synteny	MS017004

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.

TTTATGGGAAAAAGCATAATATTAGATGGAAGAACGGAAAATCCTTTTGAACAACCTATTATAATAGGAAAGTCTTATATCTTTAAATTAATTCATCGAAGAGAT

mRNA sequence

TTTATGGGAAAAAGCATAATATTAGATGGAAGAACGGAAAATCCTTTTGAACAACCTATTATAATAGGAAAGTCTTATATCTTTAAATTAATTCATCGAAGAGAT

Coding sequence (CDS)

TTTATGGGAAAAAGCATAATATTAGATGGAAGAACGGAAAATCCTTTTGAACAACCTATTATAATAGGAAAGTCTTATATCTTTAAATTAATTCATCGAAGAGAT

Protein sequence

FMGKSIILDGRTENPFEQPIIIGKSYIFKLIHRRD

Homology

[Close]

BLAST of MS017004 vs. NCBI nr
Match: QIH29171.1 (RNA polymerase beta subunit, partial [Eriocaulon cinereum])

HSP 1 Score: 61.6 bits (148), Expect = 1.5e-06
Identity = 26/35 (74.29%), Postives = 31/35 (88.57%), Query Frame = 0


Query: 1   FMGKSIILDGRTENPFEQPIIIGKSYIFKLIHRRD 36
           + GKSII DGRT +PFEQP++IGKSYIFKLIH+ D
Sbjct: 261 YPGKSIIFDGRTGDPFEQPVLIGKSYIFKLIHQVD 295

[Close]

BLAST of MS017004 vs. NCBI nr
Match: BBM04446.1 (RNA polymerase beta subunit, partial [Eriocaulon taquetii])

HSP 1 Score: 61.6 bits (148), Expect = 1.5e-06
Identity = 26/35 (74.29%), Postives = 31/35 (88.57%), Query Frame = 0


Query: 1   FMGKSIILDGRTENPFEQPIIIGKSYIFKLIHRRD 36
           + GKSII DGRT +PFEQP++IGKSYIFKLIH+ D
Sbjct: 267 YPGKSIIFDGRTGDPFEQPVLIGKSYIFKLIHQVD 301

[Close]

BLAST of MS017004 vs. NCBI nr
Match: BBM04373.1 (RNA polymerase beta subunit, partial [Eriocaulon hamiltonianum] >BBM04420.1 RNA polymerase beta subunit, partial [Eriocaulon setaceum])

HSP 1 Score: 61.6 bits (148), Expect = 1.5e-06
Identity = 26/35 (74.29%), Postives = 31/35 (88.57%), Query Frame = 0


Query: 1   FMGKSIILDGRTENPFEQPIIIGKSYIFKLIHRRD 36
           + GKSII DGRT +PFEQP++IGKSYIFKLIH+ D
Sbjct: 265 YPGKSIIFDGRTGDPFEQPVLIGKSYIFKLIHQVD 299

[Close]

BLAST of MS017004 vs. NCBI nr
Match: BBM04460.1 (RNA polymerase beta subunit, partial [Eriocaulon xeranthemum])

HSP 1 Score: 61.6 bits (148), Expect = 1.5e-06
Identity = 26/35 (74.29%), Postives = 31/35 (88.57%), Query Frame = 0


Query: 1   FMGKSIILDGRTENPFEQPIIIGKSYIFKLIHRRD 36
           + GKSII DGRT +PFEQP++IGKSYIFKLIH+ D
Sbjct: 267 YPGKSIIFDGRTGDPFEQPVLIGKSYIFKLIHQVD 301

[Close]

BLAST of MS017004 vs. NCBI nr
Match: BBM04415.1 (RNA polymerase beta subunit, partial [Eriocaulon schimperi])

HSP 1 Score: 61.6 bits (148), Expect = 1.5e-06
Identity = 26/35 (74.29%), Postives = 31/35 (88.57%), Query Frame = 0


Query: 1   FMGKSIILDGRTENPFEQPIIIGKSYIFKLIHRRD 36
           + GKSII DGRT +PFEQP++IGKSYIFKLIH+ D
Sbjct: 264 YPGKSIIFDGRTGDPFEQPVLIGKSYIFKLIHQVD 298

[Close]

BLAST of MS017004 vs. ExPASy Swiss-Prot
Match: Q06FW9 (DNA-directed RNA polymerase subunit beta OS=Pelargonium hortorum OX=4031 GN=rpoB PE=3 SV=1)

HSP 1 Score: 58.2 bits (139), Expect = 2.2e-08
Identity = 24/35 (68.57%), Postives = 30/35 (85.71%), Query Frame = 0


Query: 1   FMGKSIILDGRTENPFEQPIIIGKSYIFKLIHRRD 36
           + GKSII DGRT +PFEQP+I+G+SYI KLIH+ D
Sbjct: 923 YPGKSIIFDGRTGDPFEQPVIVGQSYILKLIHQVD 957

[Close]

BLAST of MS017004 vs. ExPASy Swiss-Prot
Match: Q8S8X9 (DNA-directed RNA polymerase subunit beta OS=Atropa belladonna OX=33113 GN=rpoB PE=3 SV=1)

HSP 1 Score: 57.4 bits (137), Expect = 3.8e-08
Identity = 25/35 (71.43%), Postives = 28/35 (80.00%), Query Frame = 0


Query: 1   FMGKSIILDGRTENPFEQPIIIGKSYIFKLIHRRD 36
           + GKS I DGRT NPFEQP+IIGK YI KLIH+ D
Sbjct: 921 YPGKSRIFDGRTGNPFEQPVIIGKPYILKLIHQVD 955

[Close]

BLAST of MS017004 vs. ExPASy Swiss-Prot
Match: A6MM28 (DNA-directed RNA polymerase subunit beta OS=Buxus microphylla OX=153571 GN=rpoB PE=3 SV=1)

HSP 1 Score: 57.4 bits (137), Expect = 3.8e-08
Identity = 25/35 (71.43%), Postives = 29/35 (82.86%), Query Frame = 0


Query: 1   FMGKSIILDGRTENPFEQPIIIGKSYIFKLIHRRD 36
           + GKS I DGRT +PFEQP+IIGKSYI KLIH+ D
Sbjct: 921 YPGKSRIFDGRTGDPFEQPVIIGKSYIMKLIHQVD 955

[Close]

BLAST of MS017004 vs. ExPASy Swiss-Prot
Match: Q7YJX8 (DNA-directed RNA polymerase subunit beta OS=Calycanthus floridus var. glaucus OX=212734 GN=rpoB PE=3 SV=1)

HSP 1 Score: 57.4 bits (137), Expect = 3.8e-08
Identity = 25/35 (71.43%), Postives = 29/35 (82.86%), Query Frame = 0


Query: 1   FMGKSIILDGRTENPFEQPIIIGKSYIFKLIHRRD 36
           + GKS I DGRT +PFEQP+IIGKSYI KLIH+ D
Sbjct: 911 YPGKSRIFDGRTGDPFEQPVIIGKSYILKLIHQVD 945

[Close]

BLAST of MS017004 vs. ExPASy Swiss-Prot
Match: A8SE86 (DNA-directed RNA polymerase subunit beta OS=Ceratophyllum demersum OX=4428 GN=rpoB PE=3 SV=1)

HSP 1 Score: 57.4 bits (137), Expect = 3.8e-08
Identity = 25/35 (71.43%), Postives = 29/35 (82.86%), Query Frame = 0


Query: 1   FMGKSIILDGRTENPFEQPIIIGKSYIFKLIHRRD 36
           + GKS I DGRT +PFEQP+IIGKSYI KLIH+ D
Sbjct: 921 YPGKSRIFDGRTGDPFEQPVIIGKSYILKLIHQVD 955

[Close]

BLAST of MS017004 vs. ExPASy TrEMBL
Match: A0A510J224 (DNA-directed RNA polymerase (Fragment) OS=Eriocaulon sp. Africa 02 OX=2594703 GN=rpoB PE=3 SV=1)

HSP 1 Score: 61.6 bits (148), Expect = 7.4e-07
Identity = 26/35 (74.29%), Postives = 31/35 (88.57%), Query Frame = 0


Query: 1   FMGKSIILDGRTENPFEQPIIIGKSYIFKLIHRRD 36
           + GKSII DGRT +PFEQP++IGKSYIFKLIH+ D
Sbjct: 267 YPGKSIIFDGRTGDPFEQPVLIGKSYIFKLIHQVD 301

[Close]

BLAST of MS017004 vs. ExPASy TrEMBL
Match: A0A510J1Z5 (DNA-directed RNA polymerase (Fragment) OS=Eriocaulon lanatum OX=2594730 GN=rpoB PE=3 SV=1)

HSP 1 Score: 61.6 bits (148), Expect = 7.4e-07
Identity = 26/35 (74.29%), Postives = 31/35 (88.57%), Query Frame = 0


Query: 1   FMGKSIILDGRTENPFEQPIIIGKSYIFKLIHRRD 36
           + GKSII DGRT +PFEQP++IGKSYIFKLIH+ D
Sbjct: 248 YPGKSIIFDGRTGDPFEQPVLIGKSYIFKLIHQVD 282

[Close]

BLAST of MS017004 vs. ExPASy TrEMBL
Match: A0A510IZX3 (DNA-directed RNA polymerase (Fragment) OS=Eriocaulon microcephalum OX=28535 GN=rpoB PE=3 SV=1)

HSP 1 Score: 61.6 bits (148), Expect = 7.4e-07
Identity = 26/35 (74.29%), Postives = 31/35 (88.57%), Query Frame = 0


Query: 1   FMGKSIILDGRTENPFEQPIIIGKSYIFKLIHRRD 36
           + GKSII DGRT +PFEQP++IGKSYIFKLIH+ D
Sbjct: 264 YPGKSIIFDGRTGDPFEQPVLIGKSYIFKLIHQVD 298

[Close]

BLAST of MS017004 vs. ExPASy TrEMBL
Match: A0A510J0G2 (DNA-directed RNA polymerase (Fragment) OS=Eriocaulon nepalense OX=2575889 GN=rpoB PE=3 SV=1)

HSP 1 Score: 61.6 bits (148), Expect = 7.4e-07
Identity = 26/35 (74.29%), Postives = 31/35 (88.57%), Query Frame = 0


Query: 1   FMGKSIILDGRTENPFEQPIIIGKSYIFKLIHRRD 36
           + GKSII DGRT +PFEQP++IGKSYIFKLIH+ D
Sbjct: 267 YPGKSIIFDGRTGDPFEQPVLIGKSYIFKLIHQVD 301

[Close]

BLAST of MS017004 vs. ExPASy TrEMBL
Match: A0A510J024 (DNA-directed RNA polymerase (Fragment) OS=Eriocaulon nepalense OX=2575889 GN=rpoB PE=3 SV=1)

HSP 1 Score: 61.6 bits (148), Expect = 7.4e-07
Identity = 26/35 (74.29%), Postives = 31/35 (88.57%), Query Frame = 0


Query: 1   FMGKSIILDGRTENPFEQPIIIGKSYIFKLIHRRD 36
           + GKSII DGRT +PFEQP++IGKSYIFKLIH+ D
Sbjct: 258 YPGKSIIFDGRTGDPFEQPVLIGKSYIFKLIHQVD 292

[Close]

BLAST of MS017004 vs. TAIR 10
Match: ATCG00190.1 (RNA polymerase subunit beta )

HSP 1 Score: 55.5 bits (132), Expect = 1.0e-08
Identity = 24/35 (68.57%), Postives = 28/35 (80.00%), Query Frame = 0


Query: 1   FMGKSIILDGRTENPFEQPIIIGKSYIFKLIHRRD 36
           + GKS I DGRT +PFEQP+IIGK YI KLIH+ D
Sbjct: 923 YPGKSRIFDGRTGDPFEQPVIIGKPYILKLIHQVD 957

The following BLAST results are available for this feature:

BLAST of MS017004 vs. NCBI nr


Match Name	E-value	Identity	Description
QIH29171.1	1.5e-06	74.29	RNA polymerase beta subunit, partial [Eriocaulon cinereum]	[more]
BBM04446.1	1.5e-06	74.29	RNA polymerase beta subunit, partial [Eriocaulon taquetii]	[more]
BBM04373.1	1.5e-06	74.29	RNA polymerase beta subunit, partial [Eriocaulon hamiltonianum] >BBM04420.1 RNA ...	[more]
BBM04460.1	1.5e-06	74.29	RNA polymerase beta subunit, partial [Eriocaulon xeranthemum]	[more]
BBM04415.1	1.5e-06	74.29	RNA polymerase beta subunit, partial [Eriocaulon schimperi]	[more]

BLAST of MS017004 vs. ExPASy Swiss-Prot


Match Name	E-value	Identity	Description
Q06FW9	2.2e-08	68.57	DNA-directed RNA polymerase subunit beta OS=Pelargonium hortorum OX=4031 GN=rpoB...	[more]
Q8S8X9	3.8e-08	71.43	DNA-directed RNA polymerase subunit beta OS=Atropa belladonna OX=33113 GN=rpoB P...	[more]
A6MM28	3.8e-08	71.43	DNA-directed RNA polymerase subunit beta OS=Buxus microphylla OX=153571 GN=rpoB ...	[more]
Q7YJX8	3.8e-08	71.43	DNA-directed RNA polymerase subunit beta OS=Calycanthus floridus var. glaucus OX...	[more]
A8SE86	3.8e-08	71.43	DNA-directed RNA polymerase subunit beta OS=Ceratophyllum demersum OX=4428 GN=rp...	[more]

BLAST of MS017004 vs. ExPASy TrEMBL


Match Name	E-value	Identity	Description
A0A510J224	7.4e-07	74.29	DNA-directed RNA polymerase (Fragment) OS=Eriocaulon sp. Africa 02 OX=2594703 GN...	[more]
A0A510J1Z5	7.4e-07	74.29	DNA-directed RNA polymerase (Fragment) OS=Eriocaulon lanatum OX=2594730 GN=rpoB ...	[more]
A0A510IZX3	7.4e-07	74.29	DNA-directed RNA polymerase (Fragment) OS=Eriocaulon microcephalum OX=28535 GN=r...	[more]
A0A510J0G2	7.4e-07	74.29	DNA-directed RNA polymerase (Fragment) OS=Eriocaulon nepalense OX=2575889 GN=rpo...	[more]
A0A510J024	7.4e-07	74.29	DNA-directed RNA polymerase (Fragment) OS=Eriocaulon nepalense OX=2575889 GN=rpo...	[more]

BLAST of MS017004 vs. TAIR 10


Match Name	E-value	Identity	Description
ATCG00190.1	1.0e-08	68.57	RNA polymerase subunit beta	[more]

InterPro

Analysis Name: InterPro Annotations of Bitter gourd (TR) v1
Date Performed: 2021-10-25


IPR Term	IPR Description	Source	Source Term	Source Description	Alignment
IPR037033	DNA-directed RNA polymerase, subunit 2, hybrid-binding domain superfamily	GENE3D	2.40.270.10		coord: 1..35 e-value: 7.5E-8 score: 34.2
None	No IPR available	SUPERFAMILY	64484	beta and beta-prime subunits of DNA dependent RNA-polymerase	coord: 2..32

Relationships

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


Feature Name	Unique Name	Type
MS017004.1	MS017004.1	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
molecular_function	GO:0003677	DNA binding
molecular_function	GO:0003899	DNA-directed 5'-3' RNA polymerase activity