CmaCh01G014220.1 (mRNA) Cucurbita maxima (Rimu) | Cucurbit Genomics Database (CuGenDB)

Overview


Name	CmaCh01G014220.1
Type	mRNA
Organism	Cucurbita maxima (Cucurbita maxima (Rimu))
Description	DNA-directed RNA polymerase
Location	Cma_Chr01 : 10020043 .. 10020654 (-)
Sequence length	354

Genome Viewer

Sequences

The following sequences are available for this feature:

Gene sequence (with intron)

Legend: CDSexon

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 CmaCh01G014220.1 vs. Swiss-Prot
Match: RPOC1_CUCSA (DNA-directed RNA polymerase subunit beta' OS=Cucumis sativus 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 = 1


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

[Close]

BLAST of CmaCh01G014220.1 vs. Swiss-Prot
Match: RPOC1_EUCGG (DNA-directed RNA polymerase subunit beta' OS=Eucalyptus globulus subsp. globulus GN=rpoC1 PE=3 SV=2)

HSP 1 Score: 123.2 bits (308), Expect = 1.8e-27
Identity = 54/58 (93.10%), Postives = 56/58 (96.55%), Query Frame = 1


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

[Close]

BLAST of CmaCh01G014220.1 vs. Swiss-Prot
Match: RPOC1_FAGEA (DNA-directed RNA polymerase subunit beta' OS=Fagopyrum esculentum subsp. ancestrale GN=rpoC1 PE=3 SV=1)

HSP 1 Score: 123.2 bits (308), Expect = 1.8e-27
Identity = 53/59 (89.83%), Postives = 57/59 (96.61%), Query Frame = 1


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

[Close]

BLAST of CmaCh01G014220.1 vs. Swiss-Prot
Match: RPOC1_CARPA (DNA-directed RNA polymerase subunit beta' OS=Carica papaya GN=rpoC1 PE=3 SV=1)

HSP 1 Score: 123.2 bits (308), Expect = 1.8e-27
Identity = 54/58 (93.10%), Postives = 57/58 (98.28%), Query Frame = 1


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

[Close]

BLAST of CmaCh01G014220.1 vs. Swiss-Prot
Match: RPOC1_SILLA (DNA-directed RNA polymerase subunit beta' OS=Silene latifolia GN=rpoC1 PE=3 SV=1)

HSP 1 Score: 122.5 bits (306), Expect = 3.1e-27
Identity = 54/59 (91.53%), Postives = 57/59 (96.61%), Query Frame = 1


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

[Close]

BLAST of CmaCh01G014220.1 vs. TrEMBL
Match: X2F7V3_LAGSI (DNA-directed RNA polymerase subunit OS=Lagenaria siceraria GN=rpoC1 PE=3 SV=1)

HSP 1 Score: 127.1 bits (318), Expect = 1.4e-26
Identity = 56/58 (96.55%), Postives = 57/58 (98.28%), Query Frame = 1


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

[Close]

BLAST of CmaCh01G014220.1 vs. TrEMBL
Match: W8E6U8_9ROSI (DNA-directed RNA polymerase subunit OS=Cucumis hystrix GN=rpoC1 PE=3 SV=1)

HSP 1 Score: 127.1 bits (318), Expect = 1.4e-26
Identity = 56/58 (96.55%), Postives = 57/58 (98.28%), Query Frame = 1


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

[Close]

BLAST of CmaCh01G014220.1 vs. TrEMBL
Match: G3ETX6_CUCME (DNA-directed RNA polymerase subunit OS=Cucumis melo subsp. melo GN=rpoC1 PE=3 SV=1)

HSP 1 Score: 127.1 bits (318), Expect = 1.4e-26
Identity = 56/58 (96.55%), Postives = 57/58 (98.28%), Query Frame = 1


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

[Close]

BLAST of CmaCh01G014220.1 vs. TrEMBL
Match: A0A0G2QX55_9CARY (DNA-directed RNA polymerase subunit OS=Salicornia brachiata GN=rpoC1 PE=3 SV=1)

HSP 1 Score: 125.9 bits (315), Expect = 3.1e-26
Identity = 56/59 (94.92%), Postives = 58/59 (98.31%), Query Frame = 1


Query: 1   MKEPFFCNSYDAIGAYRQKRINLDSPLWLRWRLDQRIIASREAPIEVHYEFLGTHHEIY 60
           MKEPFFCNSYDAIGAYRQKRINLDSPLWLRW+LDQRIIASREAPIEVHYE LGT+HEIY
Sbjct: 574 MKEPFFCNSYDAIGAYRQKRINLDSPLWLRWQLDQRIIASREAPIEVHYESLGTYHEIY 632

[Close]

BLAST of CmaCh01G014220.1 vs. TrEMBL
Match: A0A0K0K865_9CARY (DNA-directed RNA polymerase subunit OS=Haloxylon ammodendron GN=rpoC1 PE=3 SV=1)

HSP 1 Score: 125.9 bits (315), Expect = 3.1e-26
Identity = 56/59 (94.92%), Postives = 57/59 (96.61%), Query Frame = 1


Query: 1   MKEPFFCNSYDAIGAYRQKRINLDSPLWLRWRLDQRIIASREAPIEVHYEFLGTHHEIY 60
           MKEPFFCNSYD IGAYRQKRINLDSPLWLRWRLDQRIIASREAPIEVHYE LGT+HEIY
Sbjct: 576 MKEPFFCNSYDVIGAYRQKRINLDSPLWLRWRLDQRIIASREAPIEVHYESLGTYHEIY 634

[Close]

BLAST of CmaCh01G014220.1 vs. TAIR10
Match: ATCG00180.1 (ATCG00180.1 DNA-directed RNA polymerase family protein)

HSP 1 Score: 117.1 bits (292), Expect = 7.4e-27
Identity = 50/58 (86.21%), Postives = 54/58 (93.10%), Query Frame = 1


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

[Close]

BLAST of CmaCh01G014220.1 vs. NCBI nr
Match: gi|74027092|gb|AAZ94642.1| (RNA polymerase beta I subunit [Cucumis sativus])

HSP 1 Score: 127.1 bits (318), Expect = 2.0e-26
Identity = 56/58 (96.55%), Postives = 57/58 (98.28%), Query Frame = 1


Query: 2   KEPFFCNSYDAIGAYRQKRINLDSPLWLRWRLDQRIIASREAPIEVHYEFLGTHHEIY 60
           KEPFFCNSYDAIGAYRQKRINLDSPLWLRWRLDQR+IASREAPIEVHYE LGTHHEIY
Sbjct: 584 KEPFFCNSYDAIGAYRQKRINLDSPLWLRWRLDQRVIASREAPIEVHYESLGTHHEIY 641

[Close]

BLAST of CmaCh01G014220.1 vs. NCBI nr
Match: gi|590000406|ref|YP_009004035.1| (RNA polymerase beta [Cucumis hystrix])

HSP 1 Score: 127.1 bits (318), Expect = 2.0e-26
Identity = 56/58 (96.55%), Postives = 57/58 (98.28%), Query Frame = 1


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

[Close]

BLAST of CmaCh01G014220.1 vs. NCBI nr
Match: gi|595645217|gb|AHM88680.1| (RNA polymerase beta (chloroplast) [Lagenaria siceraria])

HSP 1 Score: 127.1 bits (318), Expect = 2.0e-26
Identity = 56/58 (96.55%), Postives = 57/58 (98.28%), Query Frame = 1


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

[Close]

BLAST of CmaCh01G014220.1 vs. NCBI nr
Match: gi|67511389|emb|CAJ00749.1| (RNA polymerase beta chain (chloroplast) [Cucumis sativus])

HSP 1 Score: 127.1 bits (318), Expect = 2.0e-26
Identity = 56/58 (96.55%), Postives = 57/58 (98.28%), Query Frame = 1


Query: 2   KEPFFCNSYDAIGAYRQKRINLDSPLWLRWRLDQRIIASREAPIEVHYEFLGTHHEIY 60
           KEPFFCNSYDAIGAYRQKRINLDSPLWLRWRLDQR+IASREAPIEVHYE LGTHHEIY
Sbjct: 584 KEPFFCNSYDAIGAYRQKRINLDSPLWLRWRLDQRVIASREAPIEVHYESLGTHHEIY 641

[Close]

BLAST of CmaCh01G014220.1 vs. NCBI nr
Match: gi|346578182|ref|YP_004841774.1| (RNA polymerase beta [Cucumis melo subsp. melo])

HSP 1 Score: 127.1 bits (318), Expect = 2.0e-26
Identity = 56/58 (96.55%), Postives = 57/58 (98.28%), Query Frame = 1


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

The following BLAST results are available for this feature:

BLAST of CmaCh01G014220.1 vs. Swiss-Prot


Match Name	E-value	Identity	Description
RPOC1_CUCSA	1.3e-28	96.55	DNA-directed RNA polymerase subunit beta' OS=Cucumis sativus GN=rpoC1 PE=3 SV=3	[more]
RPOC1_EUCGG	1.8e-27	93.10	DNA-directed RNA polymerase subunit beta' OS=Eucalyptus globulus subsp. globulus...	[more]
RPOC1_FAGEA	1.8e-27	89.83	DNA-directed RNA polymerase subunit beta' OS=Fagopyrum esculentum subsp. ancestr...	[more]
RPOC1_CARPA	1.8e-27	93.10	DNA-directed RNA polymerase subunit beta' OS=Carica papaya GN=rpoC1 PE=3 SV=1	[more]
RPOC1_SILLA	3.1e-27	91.53	DNA-directed RNA polymerase subunit beta' OS=Silene latifolia GN=rpoC1 PE=3 SV=1	[more]

BLAST of CmaCh01G014220.1 vs. TrEMBL


Match Name	E-value	Identity	Description
X2F7V3_LAGSI	1.4e-26	96.55	DNA-directed RNA polymerase subunit OS=Lagenaria siceraria GN=rpoC1 PE=3 SV=1	[more]
W8E6U8_9ROSI	1.4e-26	96.55	DNA-directed RNA polymerase subunit OS=Cucumis hystrix GN=rpoC1 PE=3 SV=1	[more]
G3ETX6_CUCME	1.4e-26	96.55	DNA-directed RNA polymerase subunit OS=Cucumis melo subsp. melo GN=rpoC1 PE=3 SV...	[more]
A0A0G2QX55_9CARY	3.1e-26	94.92	DNA-directed RNA polymerase subunit OS=Salicornia brachiata GN=rpoC1 PE=3 SV=1	[more]
A0A0K0K865_9CARY	3.1e-26	94.92	DNA-directed RNA polymerase subunit OS=Haloxylon ammodendron GN=rpoC1 PE=3 SV=1	[more]

BLAST of CmaCh01G014220.1 vs. TAIR10


Match Name	E-value	Identity	Description
ATCG00180.1	7.4e-27	86.21	ATCG00180.1 DNA-directed RNA polymerase family protein	[more]

BLAST of CmaCh01G014220.1 vs. NCBI nr


Match Name	E-value	Identity	Description
gi\|74027092\|gb\|AAZ94642.1\|	2.0e-26	96.55	RNA polymerase beta I subunit [Cucumis sativus]	[more]
gi\|590000406\|ref\|YP_009004035.1\|	2.0e-26	96.55	RNA polymerase beta [Cucumis hystrix]	[more]
gi\|595645217\|gb\|AHM88680.1\|	2.0e-26	96.55	RNA polymerase beta (chloroplast) [Lagenaria siceraria]	[more]
gi\|67511389\|emb\|CAJ00749.1\|	2.0e-26	96.55	RNA polymerase beta chain (chloroplast) [Cucumis sativus]	[more]
gi\|346578182\|ref\|YP_004841774.1\|	2.0e-26	96.55	RNA polymerase beta [Cucumis melo subsp. melo]	[more]

GO Annotation

GO Assignments

This mRNA is annotated with the following GO terms.

Category	Term Accession	Term Name
biological_process	GO:0006144	purine nucleobase metabolic process
biological_process	GO:0006206	pyrimidine nucleobase metabolic process
biological_process	GO:0006351	transcription, DNA-templated
cellular_component	GO:0009507	chloroplast
cellular_component	GO:0005730	nucleolus
molecular_function	GO:0003677	DNA binding
molecular_function	GO:0003899	DNA-directed RNA polymerase activity

Relationships

This mRNA is a part of the following gene feature(s):


Feature Name	Unique Name	Type
CmaCh01G014220	CmaCh01G014220	gene

The following polypeptide feature(s) derives from this mRNA:


Feature Name	Unique Name	Type
CmaCh01G014220.1	CmaCh01G014220.1-protein	polypeptide

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


Feature Name	Unique Name	Type
CmaCh01G014220.1.CDS.2	CmaCh01G014220.1.CDS.2	CDS
CmaCh01G014220.1.CDS.1	CmaCh01G014220.1.CDS.1	CDS

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


Feature Name	Unique Name	Type
CmaCh01G014220.1.exon.2	CmaCh01G014220.1.exon.2	exon
CmaCh01G014220.1.exon.1	CmaCh01G014220.1.exon.1	exon