CU171843 (transcribed_cluster) Cucumber (Chinese Long) v2 | Cucurbit Genomics Database (CuGenDB)

Overview


Name	CU171843
Type	transcribed_cluster
Organism	Cucumis. sativus (Cucumber (Chinese Long) v2)
Description	DNA-directed RNA polymerases II, IV and V subunit 12
Location	Chr1 : 4786086 .. 4786665 (-)
Sequence length	215

Genome Viewer

Sequences

The following sequences are available for this feature:

transcribed_cluster sequence

GAGGGAAAAACCCTACTACACCTTCTCCTCCCTTTTATTTTTGTTTTGATTTTTCCCTCACCCATCATTATTCGTATCGTCCTTGCAGCGGAAGATTTTTGAAGCTTGACTCATGGATCCTCAACCCGAGCCAGTCAGCTACATCTGTGGAGATTGTGGAATGGAGAACACTCTGAAGCAGGGTGATGTTAACAGTGCCGGGAGTGTGGTTATCG

Library


Library category	ESTs
hermaphrodite flower library	1

Homology

[Close]

BLAST of CU171843 vs. Swiss-Prot
Match: NRPBC_ARATH (DNA-directed RNA polymerases II, IV and V subunit 12 OS=Arabidopsis thaliana GN=NRPB12 PE=1 SV=1)

HSP 1 Score: 53.9 bits (128), Expect = 8.2e-07
Identity = 21/26 (80.77%), Postives = 21/26 (80.77%), Query Frame = 2


Query: 113 MDPQPEPVSYICGDCGMENTLKQGDV 172
           MDP PEPV+Y+CGDCG ENTLK GDV
Sbjct: 1   MDPAPEPVTYVCGDCGQENTLKSGDV 26

Query: 173  191
           
Sbjct: 61   26

[Close]

BLAST of CU171843 vs. TrEMBL
Match: A0A0A0LQM4_CUCSA (Uncharacterized protein OS=Cucumis sativus GN=Csa_1G043180 PE=4 SV=1)

HSP 1 Score: 61.6 bits (148), Expect = 4.4e-07
Identity = 26/26 (100.00%), Postives = 26/26 (100.00%), Query Frame = 2


Query: 113 MDPQPEPVSYICGDCGMENTLKQGDV 172
           MDPQPEPVSYICGDCGMENTLKQGDV
Sbjct: 1   MDPQPEPVSYICGDCGMENTLKQGDV 26

Query: 173  191
           
Sbjct: 61   26

[Close]

BLAST of CU171843 vs. TrEMBL
Match: B9SNE7_RICCO (DNA-directed RNA polymerases I, II, and III 7.0 kDa polypeptide, putative OS=Ricinus communis GN=RCOM_0175610 PE=4 SV=1)

HSP 1 Score: 61.6 bits (148), Expect = 4.4e-07
Identity = 26/26 (100.00%), Postives = 26/26 (100.00%), Query Frame = 2


Query: 113 MDPQPEPVSYICGDCGMENTLKQGDV 172
           MDPQPEPVSYICGDCGMENTLKQGDV
Sbjct: 1   MDPQPEPVSYICGDCGMENTLKQGDV 26

Query: 173  191
           
Sbjct: 61   26

[Close]

BLAST of CU171843 vs. TrEMBL
Match: A0A022RDU6_ERYGU (Uncharacterized protein OS=Erythranthe guttata GN=MIMGU_mgv1a017594mg PE=4 SV=1)

HSP 1 Score: 59.7 bits (143), Expect = 1.7e-06
Identity = 25/26 (96.15%), Postives = 25/26 (96.15%), Query Frame = 2


Query: 113 MDPQPEPVSYICGDCGMENTLKQGDV 172
           MDPQPEPVSYICGDCG ENTLKQGDV
Sbjct: 1   MDPQPEPVSYICGDCGQENTLKQGDV 26

Query: 173  191
           
Sbjct: 61   26

[Close]

BLAST of CU171843 vs. TrEMBL
Match: A0A0S3TBL1_PHAAN (Uncharacterized protein OS=Vigna angularis var. angularis GN=Vigan.11G212200 PE=4 SV=1)

HSP 1 Score: 59.3 bits (142), Expect = 2.2e-06
Identity = 25/26 (96.15%), Postives = 25/26 (96.15%), Query Frame = 2


Query: 113 MDPQPEPVSYICGDCGMENTLKQGDV 172
           MDPQPEPVSYICGDCGMENTLK GDV
Sbjct: 1   MDPQPEPVSYICGDCGMENTLKPGDV 26

Query: 173  191
           
Sbjct: 61   26

[Close]

BLAST of CU171843 vs. TrEMBL
Match: A0A067L7U6_JATCU (Uncharacterized protein OS=Jatropha curcas GN=JCGZ_16325 PE=4 SV=1)

HSP 1 Score: 59.3 bits (142), Expect = 2.2e-06
Identity = 25/26 (96.15%), Postives = 25/26 (96.15%), Query Frame = 2


Query: 113 MDPQPEPVSYICGDCGMENTLKQGDV 172
           MDPQPEPVSYICGDCGMENTLK GDV
Sbjct: 1   MDPQPEPVSYICGDCGMENTLKPGDV 26

Query: 173  191
           
Sbjct: 61   26

[Close]

BLAST of CU171843 vs. NCBI nr
Match: gi|223533156|gb|EEF34914.1| (DNA-directed RNA polymerases I, II, and III 7.0 kDa polypeptide, putative [Ricinus communis])

HSP 1 Score: 62.8 bits (151), Expect = 2.8e-07
Identity = 26/26 (100.00%), Postives = 26/26 (100.00%), Query Frame = 2


Query: 113 MDPQPEPVSYICGDCGMENTLKQGDV 172
           MDPQPEPVSYICGDCGMENTLKQGDV
Sbjct: 1   MDPQPEPVSYICGDCGMENTLKQGDV 26

Query: 173  191
           
Sbjct: 61   26

[Close]

BLAST of CU171843 vs. NCBI nr
Match: gi|1000949640|ref|XP_015579873.1| (PREDICTED: DNA-directed RNA polymerases II, IV and V subunit 12 [Ricinus communis])

HSP 1 Score: 62.8 bits (151), Expect = 2.8e-07
Identity = 26/26 (100.00%), Postives = 26/26 (100.00%), Query Frame = 2


Query: 113 MDPQPEPVSYICGDCGMENTLKQGDV 172
           MDPQPEPVSYICGDCGMENTLKQGDV
Sbjct: 1   MDPQPEPVSYICGDCGMENTLKQGDV 26

Query: 173  191
           
Sbjct: 61   26

[Close]

BLAST of CU171843 vs. NCBI nr
Match: gi|848871798|ref|XP_012836463.1| (PREDICTED: DNA-directed RNA polymerases II, IV and V subunit 12 [Erythranthe guttata])

HSP 1 Score: 60.8 bits (146), Expect = 1.1e-06
Identity = 25/26 (96.15%), Postives = 25/26 (96.15%), Query Frame = 2


Query: 113 MDPQPEPVSYICGDCGMENTLKQGDV 172
           MDPQPEPVSYICGDCG ENTLKQGDV
Sbjct: 1   MDPQPEPVSYICGDCGQENTLKQGDV 26

Query: 173  191
           
Sbjct: 61   26

[Close]

BLAST of CU171843 vs. NCBI nr
Match: gi|1012360239|gb|KYP71423.1| (DNA-directed RNA polymerases I, II, and III subunit RPABC4 [Cajanus cajan])

HSP 1 Score: 60.5 bits (145), Expect = 1.4e-06
Identity = 25/26 (96.15%), Postives = 25/26 (96.15%), Query Frame = 2


Query: 113 MDPQPEPVSYICGDCGMENTLKQGDV 172
           MDPQPEPVSYICGDCGMENTLK GDV
Sbjct: 1   MDPQPEPVSYICGDCGMENTLKPGDV 26

Query: 173  191
           
Sbjct: 61   26

[Close]

BLAST of CU171843 vs. NCBI nr
Match: gi|734310026|gb|KHM99727.1| (DNA-directed RNA polymerases I, II, and III subunit RPABC4 [Glycine soja])

HSP 1 Score: 60.5 bits (145), Expect = 1.4e-06
Identity = 25/26 (96.15%), Postives = 25/26 (96.15%), Query Frame = 2


Query: 113 MDPQPEPVSYICGDCGMENTLKQGDV 172
           MDPQPEPVSYICGDCGMENTLK GDV
Sbjct: 1   MDPQPEPVSYICGDCGMENTLKPGDV 26

Query: 173  191
           
Sbjct: 61   26

The following BLAST results are available for this feature:

BLAST of CU171843 vs. Swiss-Prot


Match Name	E-value	Identity	Description
NRPBC_ARATH	8.2e-07	80.77	DNA-directed RNA polymerases II, IV and V subunit 12 OS=Arabidopsis thaliana GN=...	[more]

BLAST of CU171843 vs. TrEMBL


Match Name	E-value	Identity	Description
A0A0A0LQM4_CUCSA	4.4e-07	100.00	Uncharacterized protein OS=Cucumis sativus GN=Csa_1G043180 PE=4 SV=1	[more]
B9SNE7_RICCO	4.4e-07	100.00	DNA-directed RNA polymerases I, II, and III 7.0 kDa polypeptide, putative OS=Ric...	[more]
A0A022RDU6_ERYGU	1.7e-06	96.15	Uncharacterized protein OS=Erythranthe guttata GN=MIMGU_mgv1a017594mg PE=4 SV=1	[more]
A0A0S3TBL1_PHAAN	2.2e-06	96.15	Uncharacterized protein OS=Vigna angularis var. angularis GN=Vigan.11G212200 PE=...	[more]
A0A067L7U6_JATCU	2.2e-06	96.15	Uncharacterized protein OS=Jatropha curcas GN=JCGZ_16325 PE=4 SV=1	[more]

BLAST of CU171843 vs. NCBI nr


Match Name	E-value	Identity	Description
gi\|223533156\|gb\|EEF34914.1\|	2.8e-07	100.00	DNA-directed RNA polymerases I, II, and III 7.0 kDa polypeptide, putative [Ricin...	[more]
gi\|1000949640\|ref\|XP_015579873.1\|	2.8e-07	100.00	PREDICTED: DNA-directed RNA polymerases II, IV and V subunit 12 [Ricinus communi...	[more]
gi\|848871798\|ref\|XP_012836463.1\|	1.1e-06	96.15	PREDICTED: DNA-directed RNA polymerases II, IV and V subunit 12 [Erythranthe gut...	[more]
gi\|1012360239\|gb\|KYP71423.1\|	1.4e-06	96.15	DNA-directed RNA polymerases I, II, and III subunit RPABC4 [Cajanus cajan]	[more]
gi\|734310026\|gb\|KHM99727.1\|	1.4e-06	96.15	DNA-directed RNA polymerases I, II, and III subunit RPABC4 [Glycine soja]	[more]

Annotated Terms

The following terms have been associated with this transcribed_cluster:

Vocabulary: **INTERPRO**
Term	Definition
IPR006591	RNAP_P/RPABC4

Vocabulary: **Biological Process**
Term	Definition
GO:0006351	transcription, DNA-templated

Vocabulary: **Molecular Function**
Term	Definition
GO:0003677	DNA binding
GO:0003899	DNA-directed RNA polymerase activity

GO Annotation

GO Assignments

This transcribed_cluster 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 RNA polymerase activity

Relationships

This transcribed_cluster is associated with the following gene feature(s):


Feature Name	Unique Name	Type
Csa1G043180	Csa1G043180	gene

The following EST feature(s) are a part of this transcribed_cluster:


Feature Name	Unique Name	Type
H0149275	H0149275	EST

InterPro

Analysis Name: InterPro Annotations of cucumber unigene v3
Date Performed: 2016-11-16


IPR Term	IPR Description	Source	Source Term	Source Description	Alignment
IPR006591	RNA polymerase archaeal subunit P/eukaryotic subunit RPABC4	GENE3D	G3DSA:2.20.28.30		coord: 7..25 score: 3.