CmaCh01G014220 (gene) Cucurbita maxima (Rimu) v1.1

Overview


Name	CmaCh01G014220
Type	gene
Organism	Cucurbita maxima (Cucurbita maxima (Rimu) v1.1)
Description	DNA-directed RNA polymerase subunit beta'
Location	Cma_Chr01: 10020043 .. 10020654 (-)
RNA-Seq Expression	CmaCh01G014220
Synteny	CmaCh01G014220

Sequences

The following sequences are available for this feature:

Gene sequence (with intron)

Legend: polypeptideexonCDS

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

ATGAAAGAACCCTTTTTTTGTAATTCCTATGATGCAATTGGAGCTTATCGCCAGAAAAGAATCAATTTAGATAGTCCTTTGTGGCTCCGTTGGCGACTAGATCAACGCATTATTGCTTCAAGAGAAGCTCCTATCGAAGTTCACTATGAATTTTTGGGTACCCATCATGAGATTTACAGGTACTATCTAATAGTCAAAAGTATAAAAAAAGAAATTCTTTGTATATACATTCGAACCACTGTTGGGTTATATTATGAACTCTATTCAAAGTGTTTGAATCCAAAATCTAAAATTTTAAATAAGTTCAAAAGATTATTCGTCTAAGCGAGATGTTCGGTTATCTTTTTTTTAACATTATTGCACTAAATCACCATTACATTGTTGGAAGGTTGAGGGAAACGGCAAAACATAAGATTTTGATATTTTGAGGTAAGAAGAGTGAGGGAGTGCCGACAGCCGACAGCCGACGTAGACGACACCGACAGCTTTTTTGGGAGACACAAAATCCACACTTTGTTACAATGTTTGTTTTTGGTGTATCATCATCATCTCTTCTCTTCTTCCCAAACAATTCAAATCAAAATCCAACCCAAAATTAATGGATCCCTTTAA

mRNA sequence

ATGAAAGAACCCTTTTTTTGTAATTCCTATGATGCAATTGGAGCTTATCGCCAGAAAAGAATCAATTTAGATAGTCCTTTGTGGCTCCGTTGGCGACTAGATCAACGCATTATTGCTTCAAGAGAAGCTCCTATCGAAGTTCACTATGAATTTTTGGGTACCCATCATGAGATTTACAGAGTGAGGGAGTGCCGACAGCCGACAGCCGACGTAGACGACACCGACAGCTTTTTTGGGAGACACAAAATCCACACTTTGTTACAATGTTTGTTTTTGGTGTATCATCATCATCTCTTCTCTTCTTCCCAAACAATTCAAATCAAAATCCAACCCAAAATTAATGGATCCCTTTAA

Coding sequence (CDS)

ATGAAAGAACCCTTTTTTTGTAATTCCTATGATGCAATTGGAGCTTATCGCCAGAAAAGAATCAATTTAGATAGTCCTTTGTGGCTCCGTTGGCGACTAGATCAACGCATTATTGCTTCAAGAGAAGCTCCTATCGAAGTTCACTATGAATTTTTGGGTACCCATCATGAGATTTACAGAGTGAGGGAGTGCCGACAGCCGACAGCCGACGTAGACGACACCGACAGCTTTTTTGGGAGACACAAAATCCACACTTTGTTACAATGTTTGTTTTTGGTGTATCATCATCATCTCTTCTCTTCTTCCCAAACAATTCAAATCAAAATCCAACCCAAAATTAATGGATCCCTTTAA

Protein sequence

MKEPFFCNSYDAIGAYRQKRINLDSPLWLRWRLDQRIIASREAPIEVHYEFLGTHHEIYRVRECRQPTADVDDTDSFFGRHKIHTLLQCLFLVYHHHLFSSSQTIQIKIQPKINGSL

Homology

[Close]

BLAST of CmaCh01G014220 vs. ExPASy Swiss-Prot
Match: Q4VZP2 (DNA-directed RNA polymerase subunit beta' OS=Cucumis sativus OX=3659 GN=rpoC1 PE=3 SV=3)

HSP 1 Score: 127.1 bits (318), Expect = 1.3e-28
Identity = 56/58 (96.55%), Postives = 57/58 (98.28%), Query Frame = 0


Query: 2   KEPFFCNSYDAIGAYRQKRINLDSPLWLRWRLDQRIIASREAPIEVHYEFLGTHHEIY 60
           KEPFFCNSYDAIGAYRQKRINLDSPLWLRWRLDQR+IASREAPIEVHYE LGTHHEIY
Sbjct: 577 KEPFFCNSYDAIGAYRQKRINLDSPLWLRWRLDQRVIASREAPIEVHYESLGTHHEIY 634

[Close]

BLAST of CmaCh01G014220 vs. ExPASy Swiss-Prot
Match: B1A926 (DNA-directed RNA polymerase subunit beta' OS=Carica papaya OX=3649 GN=rpoC1 PE=3 SV=1)

HSP 1 Score: 123.2 bits (308), Expect = 1.9e-27
Identity = 54/58 (93.10%), Postives = 57/58 (98.28%), Query Frame = 0


Query: 2   KEPFFCNSYDAIGAYRQKRINLDSPLWLRWRLDQRIIASREAPIEVHYEFLGTHHEIY 60
           KEPFFCNSYDAIGAYRQKRINLDSPLWLRW+LDQR+IASREAPIEVHYE LGT+HEIY
Sbjct: 577 KEPFFCNSYDAIGAYRQKRINLDSPLWLRWQLDQRVIASREAPIEVHYESLGTYHEIY 634

[Close]

BLAST of CmaCh01G014220 vs. ExPASy Swiss-Prot
Match: Q49L07 (DNA-directed RNA polymerase subunit beta' OS=Eucalyptus globulus subsp. globulus OX=71271 GN=rpoC1 PE=3 SV=2)

HSP 1 Score: 123.2 bits (308), Expect = 1.9e-27
Identity = 54/58 (93.10%), Postives = 56/58 (96.55%), Query Frame = 0


Query: 2   KEPFFCNSYDAIGAYRQKRINLDSPLWLRWRLDQRIIASREAPIEVHYEFLGTHHEIY 60
           KEPFFCNSYDAIGAYRQKRINLDSPLWLRWRLDQRIIASRE PIE+HYE LGT+HEIY
Sbjct: 579 KEPFFCNSYDAIGAYRQKRINLDSPLWLRWRLDQRIIASREVPIEIHYESLGTYHEIY 636

[Close]

BLAST of CmaCh01G014220 vs. ExPASy Swiss-Prot
Match: B2XWP0 (DNA-directed RNA polymerase subunit beta' OS=Fagopyrum esculentum subsp. ancestrale OX=180217 GN=rpoC1 PE=3 SV=1)

HSP 1 Score: 123.2 bits (308), Expect = 1.9e-27
Identity = 53/59 (89.83%), Postives = 57/59 (96.61%), Query Frame = 0


Query: 1   MKEPFFCNSYDAIGAYRQKRINLDSPLWLRWRLDQRIIASREAPIEVHYEFLGTHHEIY 60
           MKEPFFCNSYDAIGAYRQKRINLDSPLWLRW+LD R++ASREAPIEVHYE LGT+HEIY
Sbjct: 572 MKEPFFCNSYDAIGAYRQKRINLDSPLWLRWQLDHRVVASREAPIEVHYESLGTYHEIY 630

[Close]

BLAST of CmaCh01G014220 vs. ExPASy Swiss-Prot
Match: Q589B9 (DNA-directed RNA polymerase subunit beta' OS=Silene latifolia OX=37657 GN=rpoC1 PE=3 SV=1)

HSP 1 Score: 122.5 bits (306), Expect = 3.2e-27
Identity = 54/59 (91.53%), Postives = 57/59 (96.61%), Query Frame = 0


Query: 1   MKEPFFCNSYDAIGAYRQKRINLDSPLWLRWRLDQRIIASREAPIEVHYEFLGTHHEIY 60
           M+EPFFCNSYDAIGAY QKRINLDSPLWLRWRLDQRIIASREAP+EVHYE LGT+HEIY
Sbjct: 579 MEEPFFCNSYDAIGAYCQKRINLDSPLWLRWRLDQRIIASREAPVEVHYESLGTYHEIY 637

[Close]

BLAST of CmaCh01G014220 vs. ExPASy TrEMBL
Match: A0A6H0ESX8 (DNA-directed RNA polymerase subunit beta' OS=Cyclantheropsis parviflora OX=387129 GN=rpoC1 PE=3 SV=1)

HSP 1 Score: 129.4 bits (324), Expect = 9.7e-27
Identity = 57/59 (96.61%), Postives = 58/59 (98.31%), Query Frame = 0


Query: 1   MKEPFFCNSYDAIGAYRQKRINLDSPLWLRWRLDQRIIASREAPIEVHYEFLGTHHEIY 60
           MKEPFFCNSYDAIGAYRQKRINLDSPLWLRWRLDQR+IASREAPIEVHYE LGTHHEIY
Sbjct: 576 MKEPFFCNSYDAIGAYRQKRINLDSPLWLRWRLDQRVIASREAPIEVHYESLGTHHEIY 634

[Close]

BLAST of CmaCh01G014220 vs. ExPASy TrEMBL
Match: A0A218KG20 (DNA-directed RNA polymerase subunit beta' OS=Cucumis sativus var. hardwickii OX=319220 GN=rpoC1 PE=3 SV=1)

HSP 1 Score: 127.1 bits (318), Expect = 4.8e-26
Identity = 56/58 (96.55%), Postives = 57/58 (98.28%), Query Frame = 0


Query: 2   KEPFFCNSYDAIGAYRQKRINLDSPLWLRWRLDQRIIASREAPIEVHYEFLGTHHEIY 60
           KEPFFCNSYDAIGAYRQKRINLDSPLWLRWRLDQR+IASREAPIEVHYE LGTHHEIY
Sbjct: 577 KEPFFCNSYDAIGAYRQKRINLDSPLWLRWRLDQRVIASREAPIEVHYESLGTHHEIY 634

[Close]

BLAST of CmaCh01G014220 vs. ExPASy TrEMBL
Match: A0A6M3S6B8 (DNA-directed RNA polymerase subunit beta' OS=Trichosanthes kirilowii OX=3677 GN=rpoC1 PE=3 SV=1)

HSP 1 Score: 127.1 bits (318), Expect = 4.8e-26
Identity = 56/58 (96.55%), Postives = 57/58 (98.28%), Query Frame = 0


Query: 2   KEPFFCNSYDAIGAYRQKRINLDSPLWLRWRLDQRIIASREAPIEVHYEFLGTHHEIY 60
           KEPFFCNSYDAIGAYRQKRINLDSPLWLRWRLDQR+IASREAPIEVHYE LGTHHEIY
Sbjct: 578 KEPFFCNSYDAIGAYRQKRINLDSPLWLRWRLDQRVIASREAPIEVHYESLGTHHEIY 635

[Close]

BLAST of CmaCh01G014220 vs. ExPASy TrEMBL
Match: A0A1X9Q1T5 (DNA-directed RNA polymerase subunit beta' OS=Cucumis sativus OX=3659 GN=rpoC1 PE=3 SV=1)

HSP 1 Score: 127.1 bits (318), Expect = 4.8e-26
Identity = 56/58 (96.55%), Postives = 57/58 (98.28%), Query Frame = 0


Query: 2   KEPFFCNSYDAIGAYRQKRINLDSPLWLRWRLDQRIIASREAPIEVHYEFLGTHHEIY 60
           KEPFFCNSYDAIGAYRQKRINLDSPLWLRWRLDQR+IASREAPIEVHYE LGTHHEIY
Sbjct: 577 KEPFFCNSYDAIGAYRQKRINLDSPLWLRWRLDQRVIASREAPIEVHYESLGTHHEIY 634

[Close]

BLAST of CmaCh01G014220 vs. ExPASy TrEMBL
Match: A0A249RZJ2 (DNA-directed RNA polymerase subunit beta' OS=Cucumis melo var. cantalupensis OX=3658 GN=rpoC1 PE=3 SV=1)

HSP 1 Score: 127.1 bits (318), Expect = 4.8e-26
Identity = 56/58 (96.55%), Postives = 57/58 (98.28%), Query Frame = 0


Query: 2   KEPFFCNSYDAIGAYRQKRINLDSPLWLRWRLDQRIIASREAPIEVHYEFLGTHHEIY 60
           KEPFFCNSYDAIGAYRQKRINLDSPLWLRWRLDQR+IASREAPIEVHYE LGTHHEIY
Sbjct: 578 KEPFFCNSYDAIGAYRQKRINLDSPLWLRWRLDQRVIASREAPIEVHYESLGTHHEIY 635

[Close]

BLAST of CmaCh01G014220 vs. NCBI nr
Match: YP_009752741.1 (RNA polymerase beta' subunit [Cyclantheropsis parviflora] >QIT05391.1 RNA polymerase beta' subunit [Cyclantheropsis parviflora])

HSP 1 Score: 129.4 bits (324), Expect = 2.0e-26
Identity = 57/59 (96.61%), Postives = 58/59 (98.31%), Query Frame = 0


Query: 1   MKEPFFCNSYDAIGAYRQKRINLDSPLWLRWRLDQRIIASREAPIEVHYEFLGTHHEIY 60
           MKEPFFCNSYDAIGAYRQKRINLDSPLWLRWRLDQR+IASREAPIEVHYE LGTHHEIY
Sbjct: 576 MKEPFFCNSYDAIGAYRQKRINLDSPLWLRWRLDQRVIASREAPIEVHYESLGTHHEIY 634

[Close]

BLAST of CmaCh01G014220 vs. NCBI nr
Match: QSX42912.1 (RNA polymerase beta' subunit [Peganum harmala])

HSP 1 Score: 127.1 bits (318), Expect = 1.0e-25
Identity = 56/59 (94.92%), Postives = 58/59 (98.31%), Query Frame = 0


Query: 1   MKEPFFCNSYDAIGAYRQKRINLDSPLWLRWRLDQRIIASREAPIEVHYEFLGTHHEIY 60
           MKEPFFCNSYDAIGAYRQKRINLDSPLWLRWRLDQR+IASREAPIEVHYE LGT+HEIY
Sbjct: 580 MKEPFFCNSYDAIGAYRQKRINLDSPLWLRWRLDQRVIASREAPIEVHYESLGTYHEIY 638

[Close]

BLAST of CmaCh01G014220 vs. NCBI nr
Match: YP_247590.2 (RNA polymerase beta' subunit [Cucumis sativus])

HSP 1 Score: 127.1 bits (318), Expect = 1.0e-25
Identity = 56/58 (96.55%), Postives = 57/58 (98.28%), Query Frame = 0


Query: 2   KEPFFCNSYDAIGAYRQKRINLDSPLWLRWRLDQRIIASREAPIEVHYEFLGTHHEIY 60
           KEPFFCNSYDAIGAYRQKRINLDSPLWLRWRLDQR+IASREAPIEVHYE LGTHHEIY
Sbjct: 577 KEPFFCNSYDAIGAYRQKRINLDSPLWLRWRLDQRVIASREAPIEVHYESLGTHHEIY 634

[Close]

BLAST of CmaCh01G014220 vs. NCBI nr
Match: ASY96794.1 (RNA polymerase beta' subunit [Cucumis melo var. momordica] >ASY96968.1 RNA polymerase beta' subunit [Cucumis melo var. cantalupo] >ASY97316.1 RNA polymerase beta' subunit [Cucumis melo var. flexuosus] >ASY97055.1 RNA polymerase beta' subunit [Cucumis melo var. cantalupo] >ASY97229.1 RNA polymerase beta' subunit [Cucumis melo var. cantalupo])

HSP 1 Score: 127.1 bits (318), Expect = 1.0e-25
Identity = 56/58 (96.55%), Postives = 57/58 (98.28%), Query Frame = 0


Query: 2   KEPFFCNSYDAIGAYRQKRINLDSPLWLRWRLDQRIIASREAPIEVHYEFLGTHHEIY 60
           KEPFFCNSYDAIGAYRQKRINLDSPLWLRWRLDQR+IASREAPIEVHYE LGTHHEIY
Sbjct: 578 KEPFFCNSYDAIGAYRQKRINLDSPLWLRWRLDQRVIASREAPIEVHYESLGTHHEIY 635

[Close]

BLAST of CmaCh01G014220 vs. NCBI nr
Match: YP_009751644.1 (RNA polymerase beta' subunit [Hodgsonia heteroclita] >QIT04377.1 RNA polymerase beta' subunit [Hodgsonia heteroclita])

HSP 1 Score: 127.1 bits (318), Expect = 1.0e-25
Identity = 56/58 (96.55%), Postives = 57/58 (98.28%), Query Frame = 0


Query: 2   KEPFFCNSYDAIGAYRQKRINLDSPLWLRWRLDQRIIASREAPIEVHYEFLGTHHEIY 60
           KEPFFCNSYDAIGAYRQKRINLDSPLWLRWRLDQR+IASREAPIEVHYE LGTHHEIY
Sbjct: 577 KEPFFCNSYDAIGAYRQKRINLDSPLWLRWRLDQRVIASREAPIEVHYESLGTHHEIY 634

[Close]

BLAST of CmaCh01G014220 vs. TAIR 10
Match: ATCG00180.1 (DNA-directed RNA polymerase family protein )

HSP 1 Score: 117.1 bits (292), Expect = 9.6e-27
Identity = 50/58 (86.21%), Postives = 54/58 (93.10%), Query Frame = 0


Query: 2   KEPFFCNSYDAIGAYRQKRINLDSPLWLRWRLDQRIIASREAPIEVHYEFLGTHHEIY 60
           KEPFFCNSYDAIGAYRQK+INLDSPLWLRW+LDQR+IASRE PIEVHYE  G +HEIY
Sbjct: 577 KEPFFCNSYDAIGAYRQKKINLDSPLWLRWQLDQRVIASREVPIEVHYESFGNYHEIY 634

The following BLAST results are available for this feature:

BLAST of CmaCh01G014220 vs. ExPASy Swiss-Prot


Match Name	E-value	Identity	Description
Q4VZP2	1.3e-28	96.55	DNA-directed RNA polymerase subunit beta' OS=Cucumis sativus OX=3659 GN=rpoC1 PE...	[more]
B1A926	1.9e-27	93.10	DNA-directed RNA polymerase subunit beta' OS=Carica papaya OX=3649 GN=rpoC1 PE=3...	[more]
Q49L07	1.9e-27	93.10	DNA-directed RNA polymerase subunit beta' OS=Eucalyptus globulus subsp. globulus...	[more]
B2XWP0	1.9e-27	89.83	DNA-directed RNA polymerase subunit beta' OS=Fagopyrum esculentum subsp. ancestr...	[more]
Q589B9	3.2e-27	91.53	DNA-directed RNA polymerase subunit beta' OS=Silene latifolia OX=37657 GN=rpoC1 ...	[more]

BLAST of CmaCh01G014220 vs. ExPASy TrEMBL


Match Name	E-value	Identity	Description
A0A6H0ESX8	9.7e-27	96.61	DNA-directed RNA polymerase subunit beta' OS=Cyclantheropsis parviflora OX=38712...	[more]
A0A218KG20	4.8e-26	96.55	DNA-directed RNA polymerase subunit beta' OS=Cucumis sativus var. hardwickii OX=...	[more]
A0A6M3S6B8	4.8e-26	96.55	DNA-directed RNA polymerase subunit beta' OS=Trichosanthes kirilowii OX=3677 GN=...	[more]
A0A1X9Q1T5	4.8e-26	96.55	DNA-directed RNA polymerase subunit beta' OS=Cucumis sativus OX=3659 GN=rpoC1 PE...	[more]
A0A249RZJ2	4.8e-26	96.55	DNA-directed RNA polymerase subunit beta' OS=Cucumis melo var. cantalupensis OX=...	[more]

BLAST of CmaCh01G014220 vs. NCBI nr


Match Name	E-value	Identity	Description
YP_009752741.1	2.0e-26	96.61	RNA polymerase beta' subunit [Cyclantheropsis parviflora] >QIT05391.1 RNA polyme...	[more]
QSX42912.1	1.0e-25	94.92	RNA polymerase beta' subunit [Peganum harmala]	[more]
YP_247590.2	1.0e-25	96.55	RNA polymerase beta' subunit [Cucumis sativus]	[more]
ASY96794.1	1.0e-25	96.55	RNA polymerase beta' subunit [Cucumis melo var. momordica] >ASY96968.1 RNA polym...	[more]
YP_009751644.1	1.0e-25	96.55	RNA polymerase beta' subunit [Hodgsonia heteroclita] >QIT04377.1 RNA polymerase ...	[more]

BLAST of CmaCh01G014220 vs. TAIR 10


Match Name	E-value	Identity	Description
ATCG00180.1	9.6e-27	86.21	DNA-directed RNA polymerase family protein	[more]

InterPro

Analysis Name: InterPro Annotations of Cucurbita maxima (Rimu) v1.1
Date Performed: 2021-10-25


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: 1..112 e-value: 6.1E-6 score: 28.5

Relationships

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


Feature Name	Unique Name	Type
CmaCh01G014220.1	CmaCh01G014220.1	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:0000287	magnesium ion binding
molecular_function	GO:0008270	zinc ion binding