Csor.00g175770 (gene) Silver-seed gourd (wild; sororia) v1

Overview


Name	Csor.00g175770
Type	gene
Organism	Cucurbita argyrosperma subsp. sororia (Silver-seed gourd (wild; sororia) v1)
Description	DNA-directed RNA polymerase subunit beta
Location	Csor_Chr09: 1758662 .. 1760118 (-)
RNA-Seq Expression	Csor.00g175770
Synteny	Csor.00g175770

Sequences

The following sequences are available for this feature:

Gene sequence (with intron)

Legend: polypeptideCDSinitialstart_codonintroninternalterminalstop_codon

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

ATGGAGTGGAATAGTGAAGCGGAAGACTTATCACCTGAAACAGGTATGGATACAGATGATGATGATGATTCTGAGCGAGTCAACATACAGATCTGGGGGAAACGTTTCTAAAAGATTTTTGTAAGAAGACAGCGATGATATTTTTCAATCAGACAGCCTTATCAATCACCAAATCAACTCGTACAATGACTTCATAAAAAGTGGTCTTCAGAAGGCCTTTGATTGTATGCTTCAGTTAGTATAACATGCTTCCTAGGCATGCTCGACTTCAGAATATGACTTGTTCATCAAGGATGAAAAAGAATATCAGTGTAGAGGTGCTTAATTTACTGTGTAATTTTTACTGTCTTCGTGTCTTTTCTTATCCTTCATACCTAATAAATTGCTAATATTTGTTTAATGATTTGTGGACCCTGAGTTTGTTGAATAAAATACCTAATTAGTTATTGGATACTTGTAATGTACTAGGTATATACTCAAAGGTTAGTTACAAGCGACAAAACTGGAAAAGATCAATATGTCGACGAGGATCTTATAAATCAAGATAACAGGGATGTCTTTAAAGGCTAGCTGTGATGGTGAATTCTGACCTTTGCTGGATGAAGGATGAGCAGAAACGTGACTCTGAATTTGATCATGGAGGTTATTTTTTAATCAAAGGTGCAGAAAAAGTGAGTACACTTCCCTCCCTCATTTGGCCCCTTTATACTTTATAGTTATGTATTATCTGTAAATAAATTCACTGTTTTCTTAAATTCTACTGTCACCAAACAATCATTTCAAAACTTTTAATGCATTGTTTGTTTGAAGAGTTTTTTATTACCTTGAACAAGCTGACATAAATATGTATCCAGGTGTTCACATTATCTAATAGAGATCATCCTGGTTCATGGTTAATTGGCTGCCTTTTTAAATTTGCATACACTAAAAATATAAATAAAAAGCCTGTGGCAAAGTATTGAGTTGTGTTCATATTTTTTGAACTTTATGGTATTGAATTATGTATTGGTTTTATTTAATTATTGTTTTAACACAACATTAGCATGCTTATTTTGAAAATCATGAGTATGGTATTTCTTAGAAAATAGTTGCCTTGGAAAAGAGAGCTATTAGGCTTAATTATTTGATCGATGTTCAGGCATGTGATCTTGCCTCCTGATGGGACATAAAATTTAGTCAAAAAATTTTAGTTCTACAAAATTTTAGTTCTACAAAATTTTAGTTCACTACTAACTATATTTTGTAAAAATGATTAATTGATACCATCCTTTTCTCTGTATTTCAATTTTGAATAGATATTTATTTCTCTTTCTGCATGCATATTAATCCAAGTGGTTAACTTTTGTTCCTTTTTCACCACTTTCTTTTCATGTTCATTTCAGATATTTATTGTTCAAGAGCAAATTTGTTTGAGAAGACTCTGGGTTTCTAATATTCAAGGTTGGACTGTGGCATAA

mRNA sequence

ATGGAGTGGAATAGTGAAGCGGAAGACTTATCACCTGAAACAGAATATGACTTGTTCATCAAGGATGAAAAAGAATATCAGTGTAGAGGTATATACTCAAAGGATGAGCAGAAACGTGACTCTGAATTTGATCATGGAGGTTATTTTTTAATCAAAGGTGCAGAAAAAATATTTATTGTTCAAGAGCAAATTTGTTTGAGAAGACTCTGGGTTTCTAATATTCAAGGTTGGACTGTGGCATAA

Coding sequence (CDS)

ATGGAGTGGAATAGTGAAGCGGAAGACTTATCACCTGAAACAGAATATGACTTGTTCATCAAGGATGAAAAAGAATATCAGTGTAGAGGTATATACTCAAAGGATGAGCAGAAACGTGACTCTGAATTTGATCATGGAGGTTATTTTTTAATCAAAGGTGCAGAAAAAATATTTATTGTTCAAGAGCAAATTTGTTTGAGAAGACTCTGGGTTTCTAATATTCAAGGTTGGACTGTGGCATAA

Protein sequence

MEWNSEAEDLSPETEYDLFIKDEKEYQCRGIYSKDEQKRDSEFDHGGYFLIKGAEKIFIVQEQICLRRLWVSNIQGWTVA

Homology

[Close]

BLAST of Csor.00g175770 vs. ExPASy Swiss-Prot
Match: Q9LK40 (DNA-directed RNA polymerases IV and V subunit 2 OS=Arabidopsis thaliana OX=3702 GN=NRPD2 PE=1 SV=1)

HSP 1 Score: 64.7 bits (156), Expect = 5.4e-10
Identity = 28/44 (63.64%), Postives = 35/44 (79.55%), Query Frame = 0


Query: 37  QKRDSEFDHGGYFLIKGAEKIFIVQEQICLRRLWVSNIQGWTVA 81
           +K D  FD GGYF+IKGAEK+FI QEQ+C +RLW+SN   WTV+
Sbjct: 196 KKGDCAFDQGGYFVIKGAEKVFIAQEQMCTKRLWISN-SPWTVS 238

[Close]

BLAST of Csor.00g175770 vs. ExPASy Swiss-Prot
Match: Q9LV32 (DNA-directed RNA polymerase D subunit 2b OS=Arabidopsis thaliana OX=3702 GN=NRPD2b PE=2 SV=1)

HSP 1 Score: 62.8 bits (151), Expect = 2.1e-09
Identity = 27/44 (61.36%), Postives = 35/44 (79.55%), Query Frame = 0


Query: 37  QKRDSEFDHGGYFLIKGAEKIFIVQEQICLRRLWVSNIQGWTVA 81
           +K +  FD GGYF+IKGAEK+FI QEQ+C +RLW+SN   WTV+
Sbjct: 142 KKGNCAFDQGGYFVIKGAEKVFIAQEQMCTKRLWISN-SPWTVS 184

[Close]

BLAST of Csor.00g175770 vs. NCBI nr
Match: KAG6591531.1 (DNA-directed RNA polymerases IV and V subunit 2, partial [Cucurbita argyrosperma subsp. sororia])

HSP 1 Score: 169 bits (428), Expect = 5.45e-53
Identity = 80/80 (100.00%), Postives = 80/80 (100.00%), Query Frame = 0


Query: 1  MEWNSEAEDLSPETEYDLFIKDEKEYQCRGIYSKDEQKRDSEFDHGGYFLIKGAEKIFIV 60
          MEWNSEAEDLSPETEYDLFIKDEKEYQCRGIYSKDEQKRDSEFDHGGYFLIKGAEKIFIV
Sbjct: 1  MEWNSEAEDLSPETEYDLFIKDEKEYQCRGIYSKDEQKRDSEFDHGGYFLIKGAEKIFIV 60

Query: 61 QEQICLRRLWVSNIQGWTVA 80
          QEQICLRRLWVSNIQGWTVA
Sbjct: 61 QEQICLRRLWVSNIQGWTVA 80

[Close]

BLAST of Csor.00g175770 vs. NCBI nr
Match: KAG7024417.1 (DNA-directed RNA polymerase D subunit 2b, partial [Cucurbita argyrosperma subsp. argyrosperma])

HSP 1 Score: 100 bits (250), Expect = 7.15e-23
Identity = 46/49 (93.88%), Postives = 48/49 (97.96%), Query Frame = 0


Query: 32 YSKDEQKRDSEFDHGGYFLIKGAEKIFIVQEQICLRRLWVSNIQGWTVA 80
          + KDEQKRDSEFDHGGYFLI+GAEKIFIVQEQICLRRLWVSNIQGWTVA
Sbjct: 8  WMKDEQKRDSEFDHGGYFLIEGAEKIFIVQEQICLRRLWVSNIQGWTVA 56

[Close]

BLAST of Csor.00g175770 vs. NCBI nr
Match: XP_022138042.1 (DNA-directed RNA polymerases IV and V subunit 2-like [Momordica charantia] >XP_022138109.1 DNA-directed RNA polymerases IV and V subunit 2-like [Momordica charantia])

HSP 1 Score: 97.1 bits (240), Expect = 3.23e-21
Identity = 43/49 (87.76%), Postives = 46/49 (93.88%), Query Frame = 0


Query: 32  YSKDEQKRDSEFDHGGYFLIKGAEKIFIVQEQICLRRLWVSNIQGWTVA 80
           + K+EQKRD EFDHGGYFLIKGAEKIFI QEQICLRRLW+SNIQGWTVA
Sbjct: 205 WMKEEQKRDCEFDHGGYFLIKGAEKIFIAQEQICLRRLWISNIQGWTVA 253

[Close]

BLAST of Csor.00g175770 vs. NCBI nr
Match: XP_038897771.1 (DNA-directed RNA polymerases IV and V subunit 2-like [Benincasa hispida])

HSP 1 Score: 97.1 bits (240), Expect = 3.23e-21
Identity = 43/49 (87.76%), Postives = 46/49 (93.88%), Query Frame = 0


Query: 32  YSKDEQKRDSEFDHGGYFLIKGAEKIFIVQEQICLRRLWVSNIQGWTVA 80
           + K+EQKRD EFDHGGYFLIKGAEKIFI QEQICLRRLW+SNIQGWTVA
Sbjct: 205 WMKEEQKRDCEFDHGGYFLIKGAEKIFIAQEQICLRRLWISNIQGWTVA 253

[Close]

BLAST of Csor.00g175770 vs. NCBI nr
Match: XP_008452849.1 (PREDICTED: DNA-directed RNA polymerases IV and V subunit 2-like [Cucumis melo] >KAA0064582.1 DNA-directed RNA polymerases IV and V subunit 2-like [Cucumis melo var. makuwa] >TYK20008.1 DNA-directed RNA polymerases IV and V subunit 2-like [Cucumis melo var. makuwa])

HSP 1 Score: 95.1 bits (235), Expect = 1.53e-20
Identity = 42/49 (85.71%), Postives = 45/49 (91.84%), Query Frame = 0


Query: 32  YSKDEQKRDSEFDHGGYFLIKGAEKIFIVQEQICLRRLWVSNIQGWTVA 80
           + KDEQKRD EFD GGYFLIKGAEKIFI QEQICLRRLW+SN+QGWTVA
Sbjct: 208 WMKDEQKRDCEFDRGGYFLIKGAEKIFIAQEQICLRRLWISNVQGWTVA 256

[Close]

BLAST of Csor.00g175770 vs. ExPASy TrEMBL
Match: A0A6J1C950 (DNA-directed RNA polymerase subunit beta OS=Momordica charantia OX=3673 GN=LOC111009271 PE=3 SV=1)

HSP 1 Score: 97.1 bits (240), Expect = 1.56e-21
Identity = 43/49 (87.76%), Postives = 46/49 (93.88%), Query Frame = 0


Query: 32  YSKDEQKRDSEFDHGGYFLIKGAEKIFIVQEQICLRRLWVSNIQGWTVA 80
           + K+EQKRD EFDHGGYFLIKGAEKIFI QEQICLRRLW+SNIQGWTVA
Sbjct: 205 WMKEEQKRDCEFDHGGYFLIKGAEKIFIAQEQICLRRLWISNIQGWTVA 253

[Close]

BLAST of Csor.00g175770 vs. ExPASy TrEMBL
Match: A0A5D3D8Y5 (DNA-directed RNA polymerase subunit beta OS=Cucumis melo var. makuwa OX=1194695 GN=E5676_scaffold134G001250 PE=3 SV=1)

HSP 1 Score: 95.1 bits (235), Expect = 7.41e-21
Identity = 42/49 (85.71%), Postives = 45/49 (91.84%), Query Frame = 0


Query: 32  YSKDEQKRDSEFDHGGYFLIKGAEKIFIVQEQICLRRLWVSNIQGWTVA 80
           + KDEQKRD EFD GGYFLIKGAEKIFI QEQICLRRLW+SN+QGWTVA
Sbjct: 208 WMKDEQKRDCEFDRGGYFLIKGAEKIFIAQEQICLRRLWISNVQGWTVA 256

[Close]

BLAST of Csor.00g175770 vs. ExPASy TrEMBL
Match: A0A1S3BUT1 (DNA-directed RNA polymerase subunit beta OS=Cucumis melo OX=3656 GN=LOC103493748 PE=3 SV=1)

HSP 1 Score: 95.1 bits (235), Expect = 7.41e-21
Identity = 42/49 (85.71%), Postives = 45/49 (91.84%), Query Frame = 0


Query: 32  YSKDEQKRDSEFDHGGYFLIKGAEKIFIVQEQICLRRLWVSNIQGWTVA 80
           + KDEQKRD EFD GGYFLIKGAEKIFI QEQICLRRLW+SN+QGWTVA
Sbjct: 208 WMKDEQKRDCEFDRGGYFLIKGAEKIFIAQEQICLRRLWISNVQGWTVA 256

[Close]

BLAST of Csor.00g175770 vs. ExPASy TrEMBL
Match: A0A6J1FHZ2 (DNA-directed RNA polymerase subunit beta OS=Cucurbita moschata OX=3662 GN=LOC111445938 PE=3 SV=1)

HSP 1 Score: 94.7 bits (234), Expect = 1.01e-20
Identity = 42/49 (85.71%), Postives = 45/49 (91.84%), Query Frame = 0


Query: 32  YSKDEQKRDSEFDHGGYFLIKGAEKIFIVQEQICLRRLWVSNIQGWTVA 80
           + KD+QKRD EFDHGGYFLIKGAEKIFI QEQICLRRLW+SN QGWTVA
Sbjct: 204 WMKDDQKRDCEFDHGGYFLIKGAEKIFIAQEQICLRRLWISNNQGWTVA 252

[Close]

BLAST of Csor.00g175770 vs. ExPASy TrEMBL
Match: A0A6J1IXN3 (DNA-directed RNA polymerase subunit beta OS=Cucurbita maxima OX=3661 GN=LOC111480863 PE=3 SV=1)

HSP 1 Score: 94.7 bits (234), Expect = 1.01e-20
Identity = 42/49 (85.71%), Postives = 45/49 (91.84%), Query Frame = 0


Query: 32  YSKDEQKRDSEFDHGGYFLIKGAEKIFIVQEQICLRRLWVSNIQGWTVA 80
           + KD+QKRD EFDHGGYFLIKGAEKIFI QEQICLRRLW+SN QGWTVA
Sbjct: 204 WMKDDQKRDCEFDHGGYFLIKGAEKIFIAQEQICLRRLWISNNQGWTVA 252

[Close]

BLAST of Csor.00g175770 vs. TAIR 10
Match: AT3G23780.1 (nuclear RNA polymerase D2A )

HSP 1 Score: 64.7 bits (156), Expect = 3.9e-11
Identity = 28/44 (63.64%), Postives = 35/44 (79.55%), Query Frame = 0


Query: 37  QKRDSEFDHGGYFLIKGAEKIFIVQEQICLRRLWVSNIQGWTVA 81
           +K D  FD GGYF+IKGAEK+FI QEQ+C +RLW+SN   WTV+
Sbjct: 196 KKGDCAFDQGGYFVIKGAEKVFIAQEQMCTKRLWISN-SPWTVS 238

[Close]

BLAST of Csor.00g175770 vs. TAIR 10
Match: AT3G23780.2 (nuclear RNA polymerase D2A )

HSP 1 Score: 64.7 bits (156), Expect = 3.9e-11
Identity = 28/44 (63.64%), Postives = 35/44 (79.55%), Query Frame = 0


Query: 37  QKRDSEFDHGGYFLIKGAEKIFIVQEQICLRRLWVSNIQGWTVA 81
           +K D  FD GGYF+IKGAEK+FI QEQ+C +RLW+SN   WTV+
Sbjct: 196 KKGDCAFDQGGYFVIKGAEKVFIAQEQMCTKRLWISN-SPWTVS 238

[Close]

BLAST of Csor.00g175770 vs. TAIR 10
Match: AT3G18090.1 (nuclear RNA polymerase D2B )

HSP 1 Score: 62.8 bits (151), Expect = 1.5e-10
Identity = 27/44 (61.36%), Postives = 35/44 (79.55%), Query Frame = 0


Query: 37  QKRDSEFDHGGYFLIKGAEKIFIVQEQICLRRLWVSNIQGWTVA 81
           +K +  FD GGYF+IKGAEK+FI QEQ+C +RLW+SN   WTV+
Sbjct: 78  KKGNCAFDQGGYFVIKGAEKVFIAQEQMCTKRLWISN-SPWTVS 120

The following BLAST results are available for this feature:

BLAST of Csor.00g175770 vs. ExPASy Swiss-Prot


Match Name	E-value	Identity	Description
Q9LK40	5.4e-10	63.64	DNA-directed RNA polymerases IV and V subunit 2 OS=Arabidopsis thaliana OX=3702 ...	[more]
Q9LV32	2.1e-09	61.36	DNA-directed RNA polymerase D subunit 2b OS=Arabidopsis thaliana OX=3702 GN=NRPD...	[more]

BLAST of Csor.00g175770 vs. NCBI nr


Match Name	E-value	Identity	Description
KAG6591531.1	5.45e-53	100.00	DNA-directed RNA polymerases IV and V subunit 2, partial [Cucurbita argyrosperma...	[more]
KAG7024417.1	7.15e-23	93.88	DNA-directed RNA polymerase D subunit 2b, partial [Cucurbita argyrosperma subsp....	[more]
XP_022138042.1	3.23e-21	87.76	DNA-directed RNA polymerases IV and V subunit 2-like [Momordica charantia] >XP_0...	[more]
XP_038897771.1	3.23e-21	87.76	DNA-directed RNA polymerases IV and V subunit 2-like [Benincasa hispida]	[more]
XP_008452849.1	1.53e-20	85.71	PREDICTED: DNA-directed RNA polymerases IV and V subunit 2-like [Cucumis melo] >...	[more]

BLAST of Csor.00g175770 vs. ExPASy TrEMBL


Match Name	E-value	Identity	Description
A0A6J1C950	1.56e-21	87.76	DNA-directed RNA polymerase subunit beta OS=Momordica charantia OX=3673 GN=LOC11...	[more]
A0A5D3D8Y5	7.41e-21	85.71	DNA-directed RNA polymerase subunit beta OS=Cucumis melo var. makuwa OX=1194695 ...	[more]
A0A1S3BUT1	7.41e-21	85.71	DNA-directed RNA polymerase subunit beta OS=Cucumis melo OX=3656 GN=LOC103493748...	[more]
A0A6J1FHZ2	1.01e-20	85.71	DNA-directed RNA polymerase subunit beta OS=Cucurbita moschata OX=3662 GN=LOC111...	[more]
A0A6J1IXN3	1.01e-20	85.71	DNA-directed RNA polymerase subunit beta OS=Cucurbita maxima OX=3661 GN=LOC11148...	[more]

BLAST of Csor.00g175770 vs. TAIR 10


Match Name	E-value	Identity	Description
AT3G23780.1	3.9e-11	63.64	nuclear RNA polymerase D2A	[more]
AT3G23780.2	3.9e-11	63.64	nuclear RNA polymerase D2A	[more]
AT3G18090.1	1.5e-10	61.36	nuclear RNA polymerase D2B	[more]

InterPro

Analysis Name: InterPro Annotations of Silver-seed gourd (sororia) v1
Date Performed: 2021-10-25


IPR Term	IPR Description	Source	Source Term	Source Description	Alignment
IPR015712	DNA-directed RNA polymerase, subunit 2	PANTHER	PTHR20856	DNA-DIRECTED RNA POLYMERASE I SUBUNIT 2	coord: 33..80
None	No IPR available	PANTHER	PTHR20856:SF21	DNA-DIRECTED RNA POLYMERASE D SUBUNIT 2B-RELATED	coord: 33..80
None	No IPR available	SUPERFAMILY	64484	beta and beta-prime subunits of DNA dependent RNA-polymerase	coord: 37..75

Relationships

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


Feature Name	Unique Name	Type
Csor.00g175770.m01	Csor.00g175770.m01	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:0005665	RNA polymerase II, core complex
molecular_function	GO:0003677	DNA binding
molecular_function	GO:0003899	DNA-directed 5'-3' RNA polymerase activity
molecular_function	GO:0046872	metal ion binding
molecular_function	GO:0032549	ribonucleoside binding