CsaV3_6G030790 (gene) Cucumber (Chinese Long) v3 | Cucurbit Genomics Database (CuGenDB)

Overview


Name	CsaV3_6G030790
Type	gene
Organism	Cucumis sativus (Cucumber (Chinese Long) v3)
Description	RNA-binding protein 2
Location	chr6 : 17066501 .. 17068629 (-)

Genome Viewer

Gene Expression

Sequences

The following sequences are available for this feature:

Gene sequence (with intron)

Legend: polypeptideCDSexon

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

ATGGCGGATGATTATTGGAATCGGCAGCAGCCTTTGCTTCCTTCTCCAGCCATGCTTAAACGACCTCGTACTGATTATGGTAGGCCCGTTTGTTTATTATGTTTAATTTGTCGTCACTTCAAACCCCTTTTCTCAAATTTGTGTTCTTTTCTCCAATTCGGTTCTGTATAATGATTCTCAAGCTAGTTCGGTAGTGAATTTTGATGGGCTTAATTCCGTAACGATATCTGGACAAGTAATGAAATTATTCTCGTACTTTTTGGTTTGGTTTGATTTGTTGAGTTAGCTGTGAATAATCAGCGTTCACACAAAGTCATTGAATTCAGGTTTATTCTGATAAAGTTGTTCACAATTGTGAATGAAGAATGTACCTCGAAGTCCGAATTATCTCTCCCCCAGCTTCTTGATGGGTGTTATGTAGATCTTCGAAGTCTGTCCTTTACGGGGCATTAAAACAGTTTGATGGTCCAATGCACTTCATCTGATAGATGATACAAGGCAATTCTCCTTTTTATGGTTATAGTGGTGGATGCTTTTTTGTCTTTTTGTTCTCCCATTTCTTTTTGATATATGTGAGTGTCCGCGTTAGCTTACATGCACCTCAACTAGTCTCATTGGACAACCCCTCTGATTTGGTGTCAAGGAAATTTGTAGGATATTAAATCCTAGATGGGTGGCTATTATGGATTGAACCCATCATTTTTAACCCTTTATCGAGGCTATGCCCCATATTTACTACTAGGCCAAATCTATGGTTGTTACAGAGGTGGATGTGCAAATCAAGTTTGTCAAAAAGTAGTAGCAAGGGTCGCATTAAAAGTTTTAATGTCTTCATGAATTGAAACTTGGTGATAATGCTCTTGTTTTCAACTTTAGTTGGTTTTGAAATTTTACTTCATATTTTGAACCTTGTTGAAAATTCGTAGGGGATGATAATAAACTTTATTAACCCTTCATACAACATAAACTTTCACGATATCAAGGAAGAAACCATTACAATGAATCTTAATTGTGCCAGAGGTAGCTTGTCTTTGTCATATATCTGTATGGTATGCCATCTTGGGGAAACCTAAACTATTAATCGTTTTGGTCCTCAGTAGTGGAGAAAATTCATTCCACTCTGCTCACTAAATAGAAGGTTGCTGTACCTCTATGTTGACAATCTGTCAAAGAGAGTCATTATTTGTGTGACTTCATAAATTGTGAGAGAAGGCTTTCCAATTATATCTAATATTTTGGAGGTGTTGAAGATTTCTATTGGGAGAAAAAAAGAAGAAAAGAACATCGATGCATCTTTTCTTCTTTTGTCTTTTTGCAGGTGCTTGTTAGGAAGATCTCTTTTTTGTTTTGTTTTGTTTTCTATTTTTTTTATAAGAGACCAAGAGAGTATTTGCCTCCTTGAAAGCACCCAGAAAATCTTCTTGGAGTCCATTCAATAAAAACAGGTCAGCTCAACCAGACACTAAGAATCGAAAGTCGAAATCAGCTGTAGAAAACAATGGCGTTCTGAGTGAAAAAGGCAACGGTTTTGAATTTGTACAAGCACAAGTAACAGTCAATTTAAGAACCTAGAGATCAAGAGGAAGAAGACTCCATAGGAACGAACGGAAAATCTTGGTTTCCATGGATTCTGTCAGTTTAGAAACTCAAGTCTGCGGGGATGGATCTACCAGCATTCAAAATCCACTTTTGCAGTGCATATAGATAGCTGAGCTTCTTCACACCAATCAGGACTCTGTTGCTTGCAGGCGCTCTGGAAGTCAATACAGGCATTTTTCACTCCCAAGTGCACCTTTGCTGGAACTGCTGCCCTTCAGCTGGTGTCCAAGATTATCAATCCTTTTGAAGTCAACAGGTGGCTGTGCTATAGTGATTCTCAGTATCGAGAAGTTCCTCGGTATCTTCAAAGAAAAGAGTCACCACATCAGAAACAAAAGTTGGATTACTCTCATCTTGCAGCTGCAAATACTGACCATCCAGAGAACCCTCATGGATTAAGTCTTCTATATACTGAATCCACTGTCTCACACCTCCATTATTATGAGCTAGAAGAAGAAGAAGGATGTGATCCAGAAAAAGTTGGGGTAAGTAGAGAGAATAGAGATCGTAGAAATGAAAATTTGAAGTGA

mRNA sequence

ATGGCGGATGATTATTGGAATCGGCAGCAGCCTTTGCTTCCTTCTCCAGCCATGCTTAAACGACCTCGTACTGATTATGCTGTGAATAATCAGCGTTCACACAAAGTCATTGAATTCAGGTCAGCTCAACCAGACACTAAGAATCGAAAGTCGAAATCAGCTGTAGAAAACAATGGCGTTCTGAGTGAAAAAGGCAACGGTTTTGAATTTGTACAAGCACAAGCGCTCTGGAAGTCAATACAGGCATTTTTCACTCCCAAGTGCACCTTTGCTGGAACTGCTGCCCTTCAGCTGGTGTCCAAGATTATCAATCCTTTTGAAGTCAACAGGTGGCTGTGCTATAGTGATTCTCAGTATCGAGAAGTTCCTCGGTATCTTCAAAGAAAAGAGTCACCACATCAGAAACAAAAGTTGGATTACTCTCATCTTGCAGCTGCAAATACTGACCATCCAGAGAACCCTCATGGATTAAGTCTTCTATATACTGAATCCACTGTCTCACACCTCCATTATTATGAGCTAGAAGAAGAAGAAGGATGTGATCCAGAAAAAGTTGGGGTAAGTAGAGAGAATAGAGATCGTAGAAATGAAAATTTGAAGTGA

Coding sequence (CDS)

ATGGCGGATGATTATTGGAATCGGCAGCAGCCTTTGCTTCCTTCTCCAGCCATGCTTAAACGACCTCGTACTGATTATGCTGTGAATAATCAGCGTTCACACAAAGTCATTGAATTCAGGTCAGCTCAACCAGACACTAAGAATCGAAAGTCGAAATCAGCTGTAGAAAACAATGGCGTTCTGAGTGAAAAAGGCAACGGTTTTGAATTTGTACAAGCACAAGCGCTCTGGAAGTCAATACAGGCATTTTTCACTCCCAAGTGCACCTTTGCTGGAACTGCTGCCCTTCAGCTGGTGTCCAAGATTATCAATCCTTTTGAAGTCAACAGGTGGCTGTGCTATAGTGATTCTCAGTATCGAGAAGTTCCTCGGTATCTTCAAAGAAAAGAGTCACCACATCAGAAACAAAAGTTGGATTACTCTCATCTTGCAGCTGCAAATACTGACCATCCAGAGAACCCTCATGGATTAAGTCTTCTATATACTGAATCCACTGTCTCACACCTCCATTATTATGAGCTAGAAGAAGAAGAAGGATGTGATCCAGAAAAAGTTGGGGTAAGTAGAGAGAATAGAGATCGTAGAAATGAAAATTTGAAGTGA

Protein sequence

MADDYWNRQQPLLPSPAMLKRPRTDYAVNNQRSHKVIEFRSAQPDTKNRKSKSAVENNGVLSEKGNGFEFVQAQALWKSIQAFFTPKCTFAGTAALQLVSKIINPFEVNRWLCYSDSQYREVPRYLQRKESPHQKQKLDYSHLAAANTDHPENPHGLSLLYTESTVSHLHYYELEEEEGCDPEKVGVSRENRDRRNENLK

Homology

[Close]

BLAST of CsaV3_6G030790 vs. NCBI nr
Match: XP_004148806.1 (PREDICTED: U1 small nuclear ribonucleoprotein A [Cucumis sativus] >XP_004148807.1 PREDICTED: U1 small nuclear ribonucleoprotein A [Cucumis sativus])

HSP 1 Score: 61.2 bits (147), Expect = 4.5e-06
Identity = 26/26 (100.00%), Postives = 26/26 (100.00%), Query Frame = 0


Query: 1  MADDYWNRQQPLLPSPAMLKRPRTDY 27
          MADDYWNRQQPLLPSPAMLKRPRTDY
Sbjct: 1  MADDYWNRQQPLLPSPAMLKRPRTDY 26

[Close]

BLAST of CsaV3_6G030790 vs. NCBI nr
Match: XP_008441534.1 (PREDICTED: RNA-binding protein 2 [Cucumis melo] >XP_008441535.1 PREDICTED: RNA-binding protein 2 [Cucumis melo])

HSP 1 Score: 61.2 bits (147), Expect = 4.5e-06
Identity = 26/26 (100.00%), Postives = 26/26 (100.00%), Query Frame = 0


Query: 1  MADDYWNRQQPLLPSPAMLKRPRTDY 27
          MADDYWNRQQPLLPSPAMLKRPRTDY
Sbjct: 1  MADDYWNRQQPLLPSPAMLKRPRTDY 26

[Close]

BLAST of CsaV3_6G030790 vs. NCBI nr
Match: XP_022938706.1 (RNA-binding protein 2-like isoform X2 [Cucurbita moschata])

HSP 1 Score: 58.2 bits (139), Expect = 3.8e-05
Identity = 24/26 (92.31%), Postives = 25/26 (96.15%), Query Frame = 0


Query: 1  MADDYWNRQQPLLPSPAMLKRPRTDY 27
          MADDYWNRQQPLLPSP MLKRPRT+Y
Sbjct: 1  MADDYWNRQQPLLPSPGMLKRPRTEY 26

[Close]

BLAST of CsaV3_6G030790 vs. NCBI nr
Match: XP_022993916.1 (RNA-binding protein 2-like isoform X2 [Cucurbita maxima])

HSP 1 Score: 58.2 bits (139), Expect = 3.8e-05
Identity = 24/26 (92.31%), Postives = 25/26 (96.15%), Query Frame = 0


Query: 1  MADDYWNRQQPLLPSPAMLKRPRTDY 27
          MADDYWNRQQPLLPSP MLKRPRT+Y
Sbjct: 1  MADDYWNRQQPLLPSPGMLKRPRTEY 26

[Close]

BLAST of CsaV3_6G030790 vs. NCBI nr
Match: XP_023551656.1 (RNA-binding protein 2-like [Cucurbita pepo subsp. pepo])

HSP 1 Score: 58.2 bits (139), Expect = 3.8e-05
Identity = 24/26 (92.31%), Postives = 25/26 (96.15%), Query Frame = 0


Query: 1  MADDYWNRQQPLLPSPAMLKRPRTDY 27
          MADDYWNRQQPLLPSP MLKRPRT+Y
Sbjct: 1  MADDYWNRQQPLLPSPGMLKRPRTEY 26

[Close]

BLAST of CsaV3_6G030790 vs. TrEMBL
Match: tr|A0A1S3B4F0|A0A1S3B4F0_CUCME (RNA-binding protein 2 OS=Cucumis melo OX=3656 GN=LOC103485638 PE=4 SV=1)

HSP 1 Score: 61.2 bits (147), Expect = 3.0e-06
Identity = 26/26 (100.00%), Postives = 26/26 (100.00%), Query Frame = 0


Query: 1  MADDYWNRQQPLLPSPAMLKRPRTDY 27
          MADDYWNRQQPLLPSPAMLKRPRTDY
Sbjct: 1  MADDYWNRQQPLLPSPAMLKRPRTDY 26

The following BLAST results are available for this feature:

BLAST of CsaV3_6G030790 vs. NCBI nr


Match Name	E-value	Identity	Description
XP_004148806.1	4.5e-06	100.00	PREDICTED: U1 small nuclear ribonucleoprotein A [Cucumis sativus] >XP_004148807....	[more]
XP_008441534.1	4.5e-06	100.00	PREDICTED: RNA-binding protein 2 [Cucumis melo] >XP_008441535.1 PREDICTED: RNA-b...	[more]
XP_022938706.1	3.8e-05	92.31	RNA-binding protein 2-like isoform X2 [Cucurbita moschata]	[more]
XP_022993916.1	3.8e-05	92.31	RNA-binding protein 2-like isoform X2 [Cucurbita maxima]	[more]
XP_023551656.1	3.8e-05	92.31	RNA-binding protein 2-like [Cucurbita pepo subsp. pepo]	[more]

BLAST of CsaV3_6G030790 vs. TAIR10


Match Name	E-value	Identity	Description

BLAST of CsaV3_6G030790 vs. Swiss-Prot


Match Name	E-value	Identity	Description

BLAST of CsaV3_6G030790 vs. TrEMBL


Match Name	E-value	Identity	Description
tr\|A0A1S3B4F0\|A0A1S3B4F0_CUCME	3.0e-06	100.00	RNA-binding protein 2 OS=Cucumis melo OX=3656 GN=LOC103485638 PE=4 SV=1	[more]

GO Annotation

GO Assignments

This gene is annotated with the following GO terms.

Category	Term Accession	Term Name
biological_process	GO:0008150	biological_process
cellular_component	GO:0005575	cellular_component
molecular_function	GO:0003674	molecular_function

Relationships

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


Feature Name	Unique Name	Type
CsaV3_6G030790.1	CsaV3_6G030790.1	mRNA

InterPro

Analysis Name: InterPro Annotations of cucumber chineselong genome (v3)
Date Performed: 2019-03-04


IPR Term	IPR Description	Source	Source Term	Source Description	Alignment
None	No IPR available	MOBIDB_LITE	mobidb-lite	disorder_prediction	coord: 175..200

Synteny

The following gene(s) are orthologous to this gene:


Gene	Orthologue	Organism	Block
CsaV3_6G030790	CSPI06G17950	Wild cucumber (PI 183967)	cpicucB363
CsaV3_6G030790	MELO3C008389.2	Melon (DHL92) v3.6.1	cucmedB468

The following gene(s) are paralogous to this gene:

None

The following block(s) are covering this gene:


Gene	Organism	Block
CsaV3_6G030790	Cucurbita moschata (Rifu)	cmocucB0361
CsaV3_6G030790	Cucurbita moschata (Rifu)	cmocucB0902
CsaV3_6G030790	Cucurbita pepo (Zucchini)	cpecucB0240
CsaV3_6G030790	Cucurbita pepo (Zucchini)	cpecucB0572
CsaV3_6G030790	Bottle gourd (USVL1VR-Ls)	cuclsiB512
CsaV3_6G030790	Melon (DHL92) v3.5.1	cucmeB479
CsaV3_6G030790	Watermelon (Charleston Gray)	cucwcgB527
CsaV3_6G030790	Watermelon (97103) v1	cucwmB494
CsaV3_6G030790	Watermelon (97103) v2	cucwmbB517
CsaV3_6G030790	Wax gourd	cucwgoB592
CsaV3_6G030790	Wax gourd	cucwgoB616
CsaV3_6G030790	Cucumber (Chinese Long) v3	cuccucB212
CsaV3_6G030790	Silver-seed gourd	carcucB0073
CsaV3_6G030790	Silver-seed gourd	carcucB0876
CsaV3_6G030790	Cucumber (Gy14) v2	cgybcucB298
CsaV3_6G030790	Cucumber (Gy14) v1	cgycucB078
CsaV3_6G030790	Cucurbita maxima (Rimu)	cmacucB0365
CsaV3_6G030790	Cucurbita maxima (Rimu)	cmacucB0910