CmaCh01G009040 (gene) Cucurbita maxima (Rimu) v1.1

Overview


Name	CmaCh01G009040
Type	gene
Organism	Cucurbita maxima (Cucurbita maxima (Rimu) v1.1)
Description	DNA-directed RNA polymerase subunit beta''
Location	Cma_Chr01: 5370193 .. 5370511 (+)
RNA-Seq Expression	CmaCh01G009040
Synteny	CmaCh01G009040

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.

ATGGGCCCACGATGCATTGGCATACGAAATCAAGATATTGGTATTGGACTTATCAATCGATTCATAACCTTTCAAACACAACCGATATCTATTCGGACTCCCTTTACTTGTAGGAGTACATCTTGGATCTGCCGATTATGTTATGGACGAAGTCCTACTCACGGGGACCTGGTCGAATTGGGAGAAGCCGTAGGTATTATTGCGGGTCAATCTATTGGAGAACCGGGTACTCAACTAACATTAAGAACTTTTCATACCGGCGGAGTATTCACAGGGGGGACTGCAGAACATATACGAGCTCCTTCTAATGGAAAAATAA

mRNA sequence

ATGGGCCCACGATGCATTGGCATACGAAATCAAGATATTGGTATTGGACTTATCAATCGATTCATAACCTTTCAAACACAACCGATATCTATTCGGACTCCCTTTACTTGTAGGAGTACATCTTGGATCTGCCGATTATGTTATGGACGAAGTCCTACTCACGGGGACCTGGTCGAATTGGGAGAAGCCGTAGGTATTATTGCGGGTCAATCTATTGGAGAACCGGAACTTTTCATACCGGCGGAGTATTCACAGGGGGGACTGCAGAACATATACGAGCTCCTTCTAATGGAAAAATAA

Coding sequence (CDS)

ATGGGCCCACGATGCATTGGCATACGAAATCAAGATATTGGTATTGGACTTATCAATCGATTCATAACCTTTCAAACACAACCGATATCTATTCGGACTCCCTTTACTTGTAGGAGTACATCTTGGATCTGCCGATTATGTTATGGACGAAGTCCTACTCACGGGGACCTGGTCGAATTGGGAGAAGCCGTAGGTATTATTGCGGGTCAATCTATTGGAGAACCGGAACTTTTCATACCGGCGGAGTATTCACAGGGGGGACTGCAGAACATATACGAGCTCCTTCTAATGGAAAAATAA

Protein sequence

MGPRCIGIRNQDIGIGLINRFITFQTQPISIRTPFTCRSTSWICRLCYGRSPTHGDLVELGEAVGIIAGQSIGEPELFIPAEYSQGGLQNIYELLLMEK

Homology

[Close]

BLAST of CmaCh01G009040 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: 162.5 bits (410), Expect = 2.4e-39
Identity = 74/75 (98.67%), Postives = 75/75 (100.00%), Query Frame = 0


Query: 1   MGPRCIGIRNQDIGIGLINRFITFQTQPISIRTPFTCRSTSWICRLCYGRSPTHGDLVEL 60
           MGPRCIG+RNQDIGIGLINRFITFQTQPISIRTPFTCRSTSWICRLCYGRSPTHGDLVEL
Sbjct: 259 MGPRCIGVRNQDIGIGLINRFITFQTQPISIRTPFTCRSTSWICRLCYGRSPTHGDLVEL 318

Query: 61  GEAVGIIAGQSIGEP 76
           GEAVGIIAGQSIGEP
Sbjct: 319 GEAVGIIAGQSIGEP 333

[Close]

BLAST of CmaCh01G009040 vs. ExPASy Swiss-Prot
Match: Q49L08 (DNA-directed RNA polymerase subunit beta'' OS=Eucalyptus globulus subsp. globulus OX=71271 GN=rpoC2 PE=3 SV=1)

HSP 1 Score: 158.7 bits (400), Expect = 3.4e-38
Identity = 72/75 (96.00%), Postives = 74/75 (98.67%), Query Frame = 0


Query: 1   MGPRCIGIRNQDIGIGLINRFITFQTQPISIRTPFTCRSTSWICRLCYGRSPTHGDLVEL 60
           MGPRCI IRNQDIGIGL+NRFITF+TQPISIRTPFTCRSTSWICRLCYGRSPTHGDLVEL
Sbjct: 259 MGPRCIAIRNQDIGIGLVNRFITFRTQPISIRTPFTCRSTSWICRLCYGRSPTHGDLVEL 318

Query: 61  GEAVGIIAGQSIGEP 76
           GEAVGIIAGQSIGEP
Sbjct: 319 GEAVGIIAGQSIGEP 333

[Close]

BLAST of CmaCh01G009040 vs. ExPASy Swiss-Prot
Match: B1A925 (DNA-directed RNA polymerase subunit beta'' OS=Carica papaya OX=3649 GN=rpoC2 PE=3 SV=1)

HSP 1 Score: 155.6 bits (392), Expect = 2.9e-37
Identity = 71/75 (94.67%), Postives = 73/75 (97.33%), Query Frame = 0


Query: 1   MGPRCIGIRNQDIGIGLINRFITFQTQPISIRTPFTCRSTSWICRLCYGRSPTHGDLVEL 60
           MGPRCI IRNQDIGIGL+NRFITF+TQ ISIRTPFTCRSTSWICRLCYGRSPTHGDLVEL
Sbjct: 255 MGPRCIAIRNQDIGIGLVNRFITFRTQSISIRTPFTCRSTSWICRLCYGRSPTHGDLVEL 314

Query: 61  GEAVGIIAGQSIGEP 76
           GEAVGIIAGQSIGEP
Sbjct: 315 GEAVGIIAGQSIGEP 329

[Close]

BLAST of CmaCh01G009040 vs. ExPASy Swiss-Prot
Match: Q8S8Y1 (DNA-directed RNA polymerase subunit beta'' OS=Atropa belladonna OX=33113 GN=rpoC2 PE=3 SV=1)

HSP 1 Score: 154.8 bits (390), Expect = 5.0e-37
Identity = 70/75 (93.33%), Postives = 72/75 (96.00%), Query Frame = 0


Query: 1   MGPRCIGIRNQDIGIGLINRFITFQTQPISIRTPFTCRSTSWICRLCYGRSPTHGDLVEL 60
           MGPRCI  RNQDIGIGL+NRFITF+ QPISIRTPFTCRSTSWICRLCYGRSPTHGDLVEL
Sbjct: 259 MGPRCIATRNQDIGIGLVNRFITFRAQPISIRTPFTCRSTSWICRLCYGRSPTHGDLVEL 318

Query: 61  GEAVGIIAGQSIGEP 76
           GEAVGIIAGQSIGEP
Sbjct: 319 GEAVGIIAGQSIGEP 333

[Close]

BLAST of CmaCh01G009040 vs. ExPASy Swiss-Prot
Match: Q3C1G9 (DNA-directed RNA polymerase subunit beta'' OS=Nicotiana sylvestris OX=4096 GN=rpoC2 PE=3 SV=1)

HSP 1 Score: 154.8 bits (390), Expect = 5.0e-37
Identity = 70/75 (93.33%), Postives = 72/75 (96.00%), Query Frame = 0


Query: 1   MGPRCIGIRNQDIGIGLINRFITFQTQPISIRTPFTCRSTSWICRLCYGRSPTHGDLVEL 60
           MGPRCI  RNQDIGIGL+NRFITF+ QPISIRTPFTCRSTSWICRLCYGRSPTHGDLVEL
Sbjct: 259 MGPRCIATRNQDIGIGLVNRFITFRAQPISIRTPFTCRSTSWICRLCYGRSPTHGDLVEL 318

Query: 61  GEAVGIIAGQSIGEP 76
           GEAVGIIAGQSIGEP
Sbjct: 319 GEAVGIIAGQSIGEP 333

[Close]

BLAST of CmaCh01G009040 vs. ExPASy TrEMBL
Match: A0A6M3RTH8 (DNA-directed RNA polymerase subunit beta'' OS=Trichosanthes kirilowii OX=3677 GN=rpoC2 PE=3 SV=1)

HSP 1 Score: 162.9 bits (411), Expect = 6.7e-37
Identity = 75/75 (100.00%), Postives = 75/75 (100.00%), Query Frame = 0


Query: 1   MGPRCIGIRNQDIGIGLINRFITFQTQPISIRTPFTCRSTSWICRLCYGRSPTHGDLVEL 60
           MGPRCIGIRNQDIGIGLINRFITFQTQPISIRTPFTCRSTSWICRLCYGRSPTHGDLVEL
Sbjct: 259 MGPRCIGIRNQDIGIGLINRFITFQTQPISIRTPFTCRSTSWICRLCYGRSPTHGDLVEL 318

Query: 61  GEAVGIIAGQSIGEP 76
           GEAVGIIAGQSIGEP
Sbjct: 319 GEAVGIIAGQSIGEP 333

[Close]

BLAST of CmaCh01G009040 vs. ExPASy TrEMBL
Match: A0A6M3S448 (DNA-directed RNA polymerase subunit beta'' OS=Trichosanthes kirilowii var. japonica OX=61011 GN=rpoC2 PE=3 SV=1)

HSP 1 Score: 162.9 bits (411), Expect = 6.7e-37
Identity = 75/75 (100.00%), Postives = 75/75 (100.00%), Query Frame = 0


Query: 1   MGPRCIGIRNQDIGIGLINRFITFQTQPISIRTPFTCRSTSWICRLCYGRSPTHGDLVEL 60
           MGPRCIGIRNQDIGIGLINRFITFQTQPISIRTPFTCRSTSWICRLCYGRSPTHGDLVEL
Sbjct: 259 MGPRCIGIRNQDIGIGLINRFITFQTQPISIRTPFTCRSTSWICRLCYGRSPTHGDLVEL 318

Query: 61  GEAVGIIAGQSIGEP 76
           GEAVGIIAGQSIGEP
Sbjct: 319 GEAVGIIAGQSIGEP 333

[Close]

BLAST of CmaCh01G009040 vs. ExPASy TrEMBL
Match: A0A346QNZ0 (DNA-directed RNA polymerase subunit beta'' OS=Hodgsonia macrocarpa OX=2184935 GN=rpoC2 PE=3 SV=1)

HSP 1 Score: 162.9 bits (411), Expect = 6.7e-37
Identity = 75/75 (100.00%), Postives = 75/75 (100.00%), Query Frame = 0


Query: 1   MGPRCIGIRNQDIGIGLINRFITFQTQPISIRTPFTCRSTSWICRLCYGRSPTHGDLVEL 60
           MGPRCIGIRNQDIGIGLINRFITFQTQPISIRTPFTCRSTSWICRLCYGRSPTHGDLVEL
Sbjct: 301 MGPRCIGIRNQDIGIGLINRFITFQTQPISIRTPFTCRSTSWICRLCYGRSPTHGDLVEL 360

Query: 61  GEAVGIIAGQSIGEP 76
           GEAVGIIAGQSIGEP
Sbjct: 361 GEAVGIIAGQSIGEP 375

[Close]

BLAST of CmaCh01G009040 vs. ExPASy TrEMBL
Match: A0A6H0EPT4 (DNA-directed RNA polymerase subunit beta'' OS=Luffa aegyptiaca OX=3670 GN=rpoC2 PE=3 SV=1)

HSP 1 Score: 162.9 bits (411), Expect = 6.7e-37
Identity = 75/75 (100.00%), Postives = 75/75 (100.00%), Query Frame = 0


Query: 1   MGPRCIGIRNQDIGIGLINRFITFQTQPISIRTPFTCRSTSWICRLCYGRSPTHGDLVEL 60
           MGPRCIGIRNQDIGIGLINRFITFQTQPISIRTPFTCRSTSWICRLCYGRSPTHGDLVEL
Sbjct: 255 MGPRCIGIRNQDIGIGLINRFITFQTQPISIRTPFTCRSTSWICRLCYGRSPTHGDLVEL 314

Query: 61  GEAVGIIAGQSIGEP 76
           GEAVGIIAGQSIGEP
Sbjct: 315 GEAVGIIAGQSIGEP 329

[Close]

BLAST of CmaCh01G009040 vs. ExPASy TrEMBL
Match: A0A514YKS0 (DNA-directed RNA polymerase subunit beta'' OS=Siraitia grosvenorii OX=190515 GN=rpoC2 PE=3 SV=1)

HSP 1 Score: 162.9 bits (411), Expect = 6.7e-37
Identity = 75/75 (100.00%), Postives = 75/75 (100.00%), Query Frame = 0


Query: 1   MGPRCIGIRNQDIGIGLINRFITFQTQPISIRTPFTCRSTSWICRLCYGRSPTHGDLVEL 60
           MGPRCIGIRNQDIGIGLINRFITFQTQPISIRTPFTCRSTSWICRLCYGRSPTHGDLVEL
Sbjct: 259 MGPRCIGIRNQDIGIGLINRFITFQTQPISIRTPFTCRSTSWICRLCYGRSPTHGDLVEL 318

Query: 61  GEAVGIIAGQSIGEP 76
           GEAVGIIAGQSIGEP
Sbjct: 319 GEAVGIIAGQSIGEP 333

[Close]

BLAST of CmaCh01G009040 vs. NCBI nr
Match: YP_009751980.1 (RNA polymerase beta'' subunit [Cionosicys macranthus] >QIT05221.1 RNA polymerase beta'' subunit [Cionosicys macranthus])

HSP 1 Score: 162.9 bits (411), Expect = 1.4e-36
Identity = 75/75 (100.00%), Postives = 75/75 (100.00%), Query Frame = 0


Query: 1   MGPRCIGIRNQDIGIGLINRFITFQTQPISIRTPFTCRSTSWICRLCYGRSPTHGDLVEL 60
           MGPRCIGIRNQDIGIGLINRFITFQTQPISIRTPFTCRSTSWICRLCYGRSPTHGDLVEL
Sbjct: 255 MGPRCIGIRNQDIGIGLINRFITFQTQPISIRTPFTCRSTSWICRLCYGRSPTHGDLVEL 314

Query: 61  GEAVGIIAGQSIGEP 76
           GEAVGIIAGQSIGEP
Sbjct: 315 GEAVGIIAGQSIGEP 329

[Close]

BLAST of CmaCh01G009040 vs. NCBI nr
Match: ALO22570.1 (RpoC2 [Cucurbita pepo subsp. fraterna] >ALO22633.1 RpoC2 [Cucurbita pepo subsp. ovifera] >ALO22679.1 RpoC2 [Cucurbita pepo var. ozarkana] >ALO22739.1 RpoC2 [Cucurbita pepo subsp. pepo] >ALO22839.1 RpoC2 [Cucurbita pepo var. texana])

HSP 1 Score: 162.9 bits (411), Expect = 1.4e-36
Identity = 75/75 (100.00%), Postives = 75/75 (100.00%), Query Frame = 0


Query: 1   MGPRCIGIRNQDIGIGLINRFITFQTQPISIRTPFTCRSTSWICRLCYGRSPTHGDLVEL 60
           MGPRCIGIRNQDIGIGLINRFITFQTQPISIRTPFTCRSTSWICRLCYGRSPTHGDLVEL
Sbjct: 259 MGPRCIGIRNQDIGIGLINRFITFQTQPISIRTPFTCRSTSWICRLCYGRSPTHGDLVEL 318

Query: 61  GEAVGIIAGQSIGEP 76
           GEAVGIIAGQSIGEP
Sbjct: 319 GEAVGIIAGQSIGEP 333

[Close]

BLAST of CmaCh01G009040 vs. NCBI nr
Match: YP_009525176.1 (RNA polymerase beta subunit [Hodgsonia macrocarpa] >AXR94570.1 RNA polymerase beta subunit [Hodgsonia macrocarpa] >AXR94656.1 RNA polymerase beta subunit [Hodgsonia macrocarpa] >AXR94740.1 RNA polymerase beta subunit [Hodgsonia macrocarpa] >AXR94825.1 RNA polymerase beta subunit [Hodgsonia macrocarpa])

HSP 1 Score: 162.9 bits (411), Expect = 1.4e-36
Identity = 75/75 (100.00%), Postives = 75/75 (100.00%), Query Frame = 0


Query: 1   MGPRCIGIRNQDIGIGLINRFITFQTQPISIRTPFTCRSTSWICRLCYGRSPTHGDLVEL 60
           MGPRCIGIRNQDIGIGLINRFITFQTQPISIRTPFTCRSTSWICRLCYGRSPTHGDLVEL
Sbjct: 301 MGPRCIGIRNQDIGIGLINRFITFQTQPISIRTPFTCRSTSWICRLCYGRSPTHGDLVEL 360

Query: 61  GEAVGIIAGQSIGEP 76
           GEAVGIIAGQSIGEP
Sbjct: 361 GEAVGIIAGQSIGEP 375

[Close]

BLAST of CmaCh01G009040 vs. NCBI nr
Match: YP_009560825.1 (RpoC2 [Trichosanthes kirilowii] >QAB33181.1 RpoC2 [Trichosanthes kirilowii])

HSP 1 Score: 162.9 bits (411), Expect = 1.4e-36
Identity = 75/75 (100.00%), Postives = 75/75 (100.00%), Query Frame = 0


Query: 1   MGPRCIGIRNQDIGIGLINRFITFQTQPISIRTPFTCRSTSWICRLCYGRSPTHGDLVEL 60
           MGPRCIGIRNQDIGIGLINRFITFQTQPISIRTPFTCRSTSWICRLCYGRSPTHGDLVEL
Sbjct: 255 MGPRCIGIRNQDIGIGLINRFITFQTQPISIRTPFTCRSTSWICRLCYGRSPTHGDLVEL 314

Query: 61  GEAVGIIAGQSIGEP 76
           GEAVGIIAGQSIGEP
Sbjct: 315 GEAVGIIAGQSIGEP 329

[Close]

BLAST of CmaCh01G009040 vs. NCBI nr
Match: QJD26635.1 (RNA polymerase beta'' subunit [Trichosanthes rosthornii])

HSP 1 Score: 162.9 bits (411), Expect = 1.4e-36
Identity = 75/75 (100.00%), Postives = 75/75 (100.00%), Query Frame = 0


Query: 1   MGPRCIGIRNQDIGIGLINRFITFQTQPISIRTPFTCRSTSWICRLCYGRSPTHGDLVEL 60
           MGPRCIGIRNQDIGIGLINRFITFQTQPISIRTPFTCRSTSWICRLCYGRSPTHGDLVEL
Sbjct: 259 MGPRCIGIRNQDIGIGLINRFITFQTQPISIRTPFTCRSTSWICRLCYGRSPTHGDLVEL 318

Query: 61  GEAVGIIAGQSIGEP 76
           GEAVGIIAGQSIGEP
Sbjct: 319 GEAVGIIAGQSIGEP 333

[Close]

BLAST of CmaCh01G009040 vs. TAIR 10
Match: ATCG00170.1 (DNA-directed RNA polymerase family protein )

HSP 1 Score: 144.8 bits (364), Expect = 3.6e-35
Identity = 65/75 (86.67%), Postives = 69/75 (92.00%), Query Frame = 0


Query: 1   MGPRCIGIRNQDIGIGLINRFITFQTQPISIRTPFTCRSTSWICRLCYGRSPTHGDLVEL 60
           +G RC+  RNQD+GIGL+NR ITF TQ ISIRTPFTCRSTSWICRLCYGRSPTHGDLVEL
Sbjct: 257 IGSRCVAFRNQDLGIGLVNRLITFGTQSISIRTPFTCRSTSWICRLCYGRSPTHGDLVEL 316

Query: 61  GEAVGIIAGQSIGEP 76
           GEAVGIIAGQSIGEP
Sbjct: 317 GEAVGIIAGQSIGEP 331

The following BLAST results are available for this feature:

BLAST of CmaCh01G009040 vs. ExPASy Swiss-Prot


Match Name	E-value	Identity	Description
Q4VZP3	2.4e-39	98.67	DNA-directed RNA polymerase subunit beta'' OS=Cucumis sativus OX=3659 GN=rpoC2 P...	[more]
Q49L08	3.4e-38	96.00	DNA-directed RNA polymerase subunit beta'' OS=Eucalyptus globulus subsp. globulu...	[more]
B1A925	2.9e-37	94.67	DNA-directed RNA polymerase subunit beta'' OS=Carica papaya OX=3649 GN=rpoC2 PE=...	[more]
Q8S8Y1	5.0e-37	93.33	DNA-directed RNA polymerase subunit beta'' OS=Atropa belladonna OX=33113 GN=rpoC...	[more]
Q3C1G9	5.0e-37	93.33	DNA-directed RNA polymerase subunit beta'' OS=Nicotiana sylvestris OX=4096 GN=rp...	[more]

BLAST of CmaCh01G009040 vs. ExPASy TrEMBL


Match Name	E-value	Identity	Description
A0A6M3RTH8	6.7e-37	100.00	DNA-directed RNA polymerase subunit beta'' OS=Trichosanthes kirilowii OX=3677 GN...	[more]
A0A6M3S448	6.7e-37	100.00	DNA-directed RNA polymerase subunit beta'' OS=Trichosanthes kirilowii var. japon...	[more]
A0A346QNZ0	6.7e-37	100.00	DNA-directed RNA polymerase subunit beta'' OS=Hodgsonia macrocarpa OX=2184935 GN...	[more]
A0A6H0EPT4	6.7e-37	100.00	DNA-directed RNA polymerase subunit beta'' OS=Luffa aegyptiaca OX=3670 GN=rpoC2 ...	[more]
A0A514YKS0	6.7e-37	100.00	DNA-directed RNA polymerase subunit beta'' OS=Siraitia grosvenorii OX=190515 GN=...	[more]

BLAST of CmaCh01G009040 vs. NCBI nr


Match Name	E-value	Identity	Description
YP_009751980.1	1.4e-36	100.00	RNA polymerase beta'' subunit [Cionosicys macranthus] >QIT05221.1 RNA polymerase...	[more]
ALO22570.1	1.4e-36	100.00	RpoC2 [Cucurbita pepo subsp. fraterna] >ALO22633.1 RpoC2 [Cucurbita pepo subsp. ...	[more]
YP_009525176.1	1.4e-36	100.00	RNA polymerase beta subunit [Hodgsonia macrocarpa] >AXR94570.1 RNA polymerase be...	[more]
YP_009560825.1	1.4e-36	100.00	RpoC2 [Trichosanthes kirilowii] >QAB33181.1 RpoC2 [Trichosanthes kirilowii]	[more]
QJD26635.1	1.4e-36	100.00	RNA polymerase beta'' subunit [Trichosanthes rosthornii]	[more]

BLAST of CmaCh01G009040 vs. TAIR 10


Match Name	E-value	Identity	Description
ATCG00170.1	3.6e-35	86.67	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
IPR007081	RNA polymerase Rpb1, domain 5	PFAM	PF04998	RNA_pol_Rpb1_5	coord: 16..75 e-value: 2.5E-7 score: 30.4
None	No IPR available	PANTHER	PTHR19376:SF47	DNA-DIRECTED RNA POLYMERASE SUBUNIT BETA''	coord: 1..79
None	No IPR available	PANTHER	PTHR19376	DNA-DIRECTED RNA POLYMERASE	coord: 1..79
None	No IPR available	SUPERFAMILY	64484	beta and beta-prime subunits of DNA dependent RNA-polymerase	coord: 9..75

Relationships

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


Feature Name	Unique Name	Type
CmaCh01G009040.1	CmaCh01G009040.1	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