CsaV3_3G039630 (gene) Cucumber (Chinese Long) v3

Overview


Name	CsaV3_3G039630
Type	gene
Organism	Cucumis sativus L. var. sativus cv. Chinese Long (Cucumber (Chinese Long) v3)
Description	DNA-directed RNA polymerase subunit beta
Location	chr3: 32555160 .. 32555324 (+)
RNA-Seq Expression	CsaV3_3G039630
Synteny	CsaV3_3G039630

Sequences

The following sequences are available for this feature:

Gene sequence (with intron)

Legend: exonCDSpolypeptide

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

ATGGAACGTTATATCTTGAAATTAATTTGTCAAGTTGATGCTAAAATACACAAAGGTTTTGGTGGACATTATGCACTTGTTACACAACCACCTTTTAGAGGCAGGGCCAACAAGGTATCAACAGGCGCCTGTAAACTAGGCACTCTCCAAATGGTACTGGATTGA

mRNA sequence

ATGGAACGTTATATCTTGAAATTAATTTGTCAAGTTGATGCTAAAATACACAAAGGTTTTGGTGGACATTATGCACTTGTTACACAACCACCTTTTAGAGGCAGGGCCAACAAGGTATCAACAGGCGCCTGTAAACTAGGCACTCTCCAAATGGTACTGGATTGA

Coding sequence (CDS)

ATGGAACGTTATATCTTGAAATTAATTTGTCAAGTTGATGCTAAAATACACAAAGGTTTTGGTGGACATTATGCACTTGTTACACAACCACCTTTTAGAGGCAGGGCCAACAAGGTATCAACAGGCGCCTGTAAACTAGGCACTCTCCAAATGGTACTGGATTGA

Protein sequence

MERYILKLICQVDAKIHKGFGGHYALVTQPPFRGRANKVSTGACKLGTLQMVLD*

Homology

[Close]

BLAST of CsaV3_3G039630 vs. NCBI nr
Match: KGN59384.1 (hypothetical protein Csa_002515 [Cucumis sativus])

HSP 1 Score: 117.5 bits (293), Expect = 3.7e-23
Identity = 54/54 (100.00%), Postives = 54/54 (100.00%), Query Frame = 0


Query: 1  MERYILKLICQVDAKIHKGFGGHYALVTQPPFRGRANKVSTGACKLGTLQMVLD 55
          MERYILKLICQVDAKIHKGFGGHYALVTQPPFRGRANKVSTGACKLGTLQMVLD
Sbjct: 1  MERYILKLICQVDAKIHKGFGGHYALVTQPPFRGRANKVSTGACKLGTLQMVLD 54

[Close]

BLAST of CsaV3_3G039630 vs. NCBI nr
Match: RZC81245.1 (hypothetical protein C5167_043860 [Papaver somniferum])

HSP 1 Score: 57.8 bits (138), Expect = 3.5e-05
Identity = 29/48 (60.42%), Postives = 34/48 (70.83%), Query Frame = 0


Query: 4   YILKLICQVDAKIHKGFGGHYALVTQPPFRGRANKVSTGACKLGTLQM 52
           YILKLI QVD KIH  F GHYALVTQ P RGRA K   G  ++G +++
Sbjct: 518 YILKLIHQVDDKIHGRFSGHYALVTQQPLRGRAKK---GGQRVGEMEV 562

[Close]

BLAST of CsaV3_3G039630 vs. NCBI nr
Match: YP_009435125.1 (RNA polymerase beta subunit [Lobelia linearis] >ATG25127.1 RNA polymerase beta subunit [Lobelia linearis])

HSP 1 Score: 57.0 bits (136), Expect = 6.0e-05
Identity = 29/50 (58.00%), Postives = 34/50 (68.00%), Query Frame = 0


Query: 2   ERYILKLICQVDAKIHKGFGGHYALVTQPPFRGRANKVSTGACKLGTLQM 52
           E YILKLI QVD KIH    GHY LVTQ P RGRANK   G  ++G +++
Sbjct: 941 EPYILKLIHQVDDKIHGRSSGHYTLVTQQPLRGRANK---GGQRVGEMEV 987

[Close]

BLAST of CsaV3_3G039630 vs. NCBI nr
Match: YP_009771901.1 (RNA polymerase beta subunit [Sphinga acatlensis] >QIT02686.1 RNA polymerase beta subunit [Sphinga acatlensis])

HSP 1 Score: 57.0 bits (136), Expect = 6.0e-05
Identity = 29/50 (58.00%), Postives = 35/50 (70.00%), Query Frame = 0


Query: 2   ERYILKLICQVDAKIHKGFGGHYALVTQPPFRGRANKVSTGACKLGTLQM 52
           E YILKLI QVD KIH   GGHYALVTQ P RGRA +   G  ++G +++
Sbjct: 942 EPYILKLIHQVDDKIHGRSGGHYALVTQQPLRGRAKQ---GGQRVGEMEV 988

[Close]

BLAST of CsaV3_3G039630 vs. NCBI nr
Match: YP_009383303.1 (RNA polymerase beta subunit [Pithecellobium flexicaule] >APA33419.1 RNA polymerase beta subunit [Pithecellobium flexicaule])

HSP 1 Score: 57.0 bits (136), Expect = 6.0e-05
Identity = 29/50 (58.00%), Postives = 35/50 (70.00%), Query Frame = 0


Query: 2   ERYILKLICQVDAKIHKGFGGHYALVTQPPFRGRANKVSTGACKLGTLQM 52
           E YILKLI QVD KIH   GGHYALVTQ P RGRA +   G  ++G +++
Sbjct: 942 EPYILKLIHQVDDKIHGRSGGHYALVTQQPLRGRAKQ---GGQRVGEMEV 988

[Close]

BLAST of CsaV3_3G039630 vs. ExPASy Swiss-Prot
Match: A9LYH7 (DNA-directed RNA polymerase subunit beta OS=Acorus americanus OX=263995 GN=rpoB PE=3 SV=1)

HSP 1 Score: 53.1 bits (126), Expect = 1.1e-06
Identity = 27/48 (56.25%), Postives = 33/48 (68.75%), Query Frame = 0


Query: 4    YILKLICQVDAKIHKGFGGHYALVTQPPFRGRANKVSTGACKLGTLQM 52
            YILKLI QVD KIH    GHYALVTQ P RGRA +   G  ++G +++
Sbjct: 959  YILKLIHQVDDKIHGRSSGHYALVTQQPLRGRAKQ---GGQRVGEMEV 1003

[Close]

BLAST of CsaV3_3G039630 vs. ExPASy Swiss-Prot
Match: Q3V542 (DNA-directed RNA polymerase subunit beta OS=Acorus calamus OX=4465 GN=rpoB PE=3 SV=2)

HSP 1 Score: 53.1 bits (126), Expect = 1.1e-06
Identity = 27/48 (56.25%), Postives = 33/48 (68.75%), Query Frame = 0


Query: 4   YILKLICQVDAKIHKGFGGHYALVTQPPFRGRANKVSTGACKLGTLQM 52
           YILKLI QVD KIH    GHYALVTQ P RGRA +   G  ++G +++
Sbjct: 947 YILKLIHQVDDKIHGRSSGHYALVTQQPLRGRAKQ---GGQRVGEMEV 991

[Close]

BLAST of CsaV3_3G039630 vs. ExPASy Swiss-Prot
Match: Q5QA72 (DNA-directed RNA polymerase subunit beta OS=Acorus gramineus OX=55184 GN=rpoB PE=3 SV=1)

HSP 1 Score: 53.1 bits (126), Expect = 1.1e-06
Identity = 27/48 (56.25%), Postives = 33/48 (68.75%), Query Frame = 0


Query: 4   YILKLICQVDAKIHKGFGGHYALVTQPPFRGRANKVSTGACKLGTLQM 52
           YILKLI QVD KIH    GHYALVTQ P RGRA +   G  ++G +++
Sbjct: 947 YILKLIHQVDDKIHGRSSGHYALVTQQPLRGRAKQ---GGQRVGEMEV 991

[Close]

BLAST of CsaV3_3G039630 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: 53.1 bits (126), Expect = 1.1e-06
Identity = 27/48 (56.25%), Postives = 33/48 (68.75%), Query Frame = 0


Query: 4   YILKLICQVDAKIHKGFGGHYALVTQPPFRGRANKVSTGACKLGTLQM 52
           YILKLI QVD KIH    GHYALVTQ P RGRA +   G  ++G +++
Sbjct: 946 YILKLIHQVDDKIHGRSSGHYALVTQQPLRGRAKQ---GGQRVGEMEV 990

[Close]

BLAST of CsaV3_3G039630 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: 53.1 bits (126), Expect = 1.1e-06
Identity = 27/48 (56.25%), Postives = 33/48 (68.75%), Query Frame = 0


Query: 4   YILKLICQVDAKIHKGFGGHYALVTQPPFRGRANKVSTGACKLGTLQM 52
           YILKLI QVD KIH    GHYALVTQ P RGRA +   G  ++G +++
Sbjct: 936 YILKLIHQVDDKIHGRSSGHYALVTQQPLRGRAKQ---GGQRVGEMEV 980

[Close]

BLAST of CsaV3_3G039630 vs. ExPASy TrEMBL
Match: A0A0A0LEN8 (Uncharacterized protein OS=Cucumis sativus OX=3659 GN=Csa_3G815480 PE=4 SV=1)

HSP 1 Score: 117.5 bits (293), Expect = 1.8e-23
Identity = 54/54 (100.00%), Postives = 54/54 (100.00%), Query Frame = 0


Query: 1  MERYILKLICQVDAKIHKGFGGHYALVTQPPFRGRANKVSTGACKLGTLQMVLD 55
          MERYILKLICQVDAKIHKGFGGHYALVTQPPFRGRANKVSTGACKLGTLQMVLD
Sbjct: 1  MERYILKLICQVDAKIHKGFGGHYALVTQPPFRGRANKVSTGACKLGTLQMVLD 54

[Close]

BLAST of CsaV3_3G039630 vs. ExPASy TrEMBL
Match: A0A4Y7LAN4 (DNA-directed RNA polymerase subunit beta OS=Papaver somniferum OX=3469 GN=C5167_043860 PE=3 SV=1)

HSP 1 Score: 57.8 bits (138), Expect = 1.7e-05
Identity = 29/48 (60.42%), Postives = 34/48 (70.83%), Query Frame = 0


Query: 4   YILKLICQVDAKIHKGFGGHYALVTQPPFRGRANKVSTGACKLGTLQM 52
           YILKLI QVD KIH  F GHYALVTQ P RGRA K   G  ++G +++
Sbjct: 518 YILKLIHQVDDKIHGRFSGHYALVTQQPLRGRAKK---GGQRVGEMEV 562

[Close]

BLAST of CsaV3_3G039630 vs. ExPASy TrEMBL
Match: A0A1D0C241 (DNA-directed RNA polymerase subunit beta OS=Acacia inceana subsp. conformis OX=1173652 GN=rpoB PE=3 SV=1)

HSP 1 Score: 57.0 bits (136), Expect = 2.9e-05
Identity = 29/50 (58.00%), Postives = 35/50 (70.00%), Query Frame = 0


Query: 2   ERYILKLICQVDAKIHKGFGGHYALVTQPPFRGRANKVSTGACKLGTLQM 52
           E YILKLI QVD KIH   GGHYALVTQ P RGRA +   G  ++G +++
Sbjct: 944 EPYILKLIHQVDDKIHGRSGGHYALVTQQPLRGRAKQ---GGQRVGEMEV 990

[Close]

BLAST of CsaV3_3G039630 vs. ExPASy TrEMBL
Match: A0A291EZ27 (DNA-directed RNA polymerase subunit beta OS=Lobelia linearis OX=2041131 GN=rpoB PE=3 SV=1)

HSP 1 Score: 57.0 bits (136), Expect = 2.9e-05
Identity = 29/50 (58.00%), Postives = 34/50 (68.00%), Query Frame = 0


Query: 2   ERYILKLICQVDAKIHKGFGGHYALVTQPPFRGRANKVSTGACKLGTLQM 52
           E YILKLI QVD KIH    GHY LVTQ P RGRANK   G  ++G +++
Sbjct: 941 EPYILKLIHQVDDKIHGRSSGHYTLVTQQPLRGRANK---GGQRVGEMEV 987

[Close]

BLAST of CsaV3_3G039630 vs. ExPASy TrEMBL
Match: A0A6H0EMV9 (DNA-directed RNA polymerase subunit beta OS=Sphinga acatlensis OX=468161 GN=rpoB PE=3 SV=1)

HSP 1 Score: 57.0 bits (136), Expect = 2.9e-05
Identity = 29/50 (58.00%), Postives = 35/50 (70.00%), Query Frame = 0


Query: 2   ERYILKLICQVDAKIHKGFGGHYALVTQPPFRGRANKVSTGACKLGTLQM 52
           E YILKLI QVD KIH   GGHYALVTQ P RGRA +   G  ++G +++
Sbjct: 942 EPYILKLIHQVDDKIHGRSGGHYALVTQQPLRGRAKQ---GGQRVGEMEV 988

[Close]

BLAST of CsaV3_3G039630 vs. TAIR 10
Match: ATCG00190.1 (RNA polymerase subunit beta )

HSP 1 Score: 52.0 bits (123), Expect = 1.8e-07
Identity = 26/48 (54.17%), Postives = 33/48 (68.75%), Query Frame = 0


Query: 4   YILKLICQVDAKIHKGFGGHYALVTQPPFRGRANKVSTGACKLGTLQM 52
           YILKLI QVD KIH    GHYALVTQ P RGR+ +   G  ++G +++
Sbjct: 948 YILKLIHQVDDKIHGRSSGHYALVTQQPLRGRSKQ---GGQRVGEMEV 992

The following BLAST results are available for this feature:

BLAST of CsaV3_3G039630 vs. NCBI nr


Match Name	E-value	Identity	Description
KGN59384.1	3.7e-23	100.00	hypothetical protein Csa_002515 [Cucumis sativus]	[more]
RZC81245.1	3.5e-05	60.42	hypothetical protein C5167_043860 [Papaver somniferum]	[more]
YP_009435125.1	6.0e-05	58.00	RNA polymerase beta subunit [Lobelia linearis] >ATG25127.1 RNA polymerase beta s...	[more]
YP_009771901.1	6.0e-05	58.00	RNA polymerase beta subunit [Sphinga acatlensis] >QIT02686.1 RNA polymerase beta...	[more]
YP_009383303.1	6.0e-05	58.00	RNA polymerase beta subunit [Pithecellobium flexicaule] >APA33419.1 RNA polymera...	[more]

BLAST of CsaV3_3G039630 vs. ExPASy Swiss-Prot


Match Name	E-value	Identity	Description
A9LYH7	1.1e-06	56.25	DNA-directed RNA polymerase subunit beta OS=Acorus americanus OX=263995 GN=rpoB ...	[more]
Q3V542	1.1e-06	56.25	DNA-directed RNA polymerase subunit beta OS=Acorus calamus OX=4465 GN=rpoB PE=3 ...	[more]
Q5QA72	1.1e-06	56.25	DNA-directed RNA polymerase subunit beta OS=Acorus gramineus OX=55184 GN=rpoB PE...	[more]
Q8S8X9	1.1e-06	56.25	DNA-directed RNA polymerase subunit beta OS=Atropa belladonna OX=33113 GN=rpoB P...	[more]
Q7YJX8	1.1e-06	56.25	DNA-directed RNA polymerase subunit beta OS=Calycanthus floridus var. glaucus OX...	[more]

BLAST of CsaV3_3G039630 vs. ExPASy TrEMBL


Match Name	E-value	Identity	Description
A0A0A0LEN8	1.8e-23	100.00	Uncharacterized protein OS=Cucumis sativus OX=3659 GN=Csa_3G815480 PE=4 SV=1	[more]
A0A4Y7LAN4	1.7e-05	60.42	DNA-directed RNA polymerase subunit beta OS=Papaver somniferum OX=3469 GN=C5167_...	[more]
A0A1D0C241	2.9e-05	58.00	DNA-directed RNA polymerase subunit beta OS=Acacia inceana subsp. conformis OX=1...	[more]
A0A291EZ27	2.9e-05	58.00	DNA-directed RNA polymerase subunit beta OS=Lobelia linearis OX=2041131 GN=rpoB ...	[more]
A0A6H0EMV9	2.9e-05	58.00	DNA-directed RNA polymerase subunit beta OS=Sphinga acatlensis OX=468161 GN=rpoB...	[more]

BLAST of CsaV3_3G039630 vs. TAIR 10


Match Name	E-value	Identity	Description
ATCG00190.1	1.8e-07	54.17	RNA polymerase subunit beta	[more]

InterPro

Analysis Name: InterPro Annotations of Cucumber (Chinese Long) v3
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: 2..48 e-value: 3.5E-5 score: 25.2

Relationships

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


Feature Name	Unique Name	Type
CsaV3_3G039630.1	CsaV3_3G039630.1	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