CmaCh17G012320 (gene) Cucurbita maxima (Rimu) | Cucurbit Genomics Database (CuGenDB)

Overview


Name	CmaCh17G012320
Type	gene
Organism	Cucurbita maxima (Cucurbita maxima (Rimu))
Description	RNA binding protein, putative
Location	Cma_Chr17 : 8469219 .. 8470133 (-)

Genome Viewer

Gene Expression

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.

ATGATAAGGACTGTGGCTGCATTGTTGCTAGTGACGGTGAGTTTGGTCAGGGCTCACCTCGAAGTTGAGTATGAGAGGATCAATATAAAGCTGCCACTTTCTAGGTATTACATTCATTTCGTTAACGATCTAAGCATCCTTGGTATGATGGTGCACTGCCAGTCGAAGGACGATGATTTGGGAGTTCATCATTTGCTTAATCGGGGAGATAATTACCAATTTAACTTTAGGGTTAACTTTTGGAGAACAACCCTCTTTTGGTGTGATGTGAATAGGCCCGATACAAACGTCTCTTTTCAATGCTTTTGGCCTGAGAAGATGAGCACATGGCTTCGTGATAGATGCCGAGATGGAAATGTAGGAACTTGTATCTGGAAGTTTAAAGACGATGGAATTTACTTGAGAAACAATGCAGCTAATACGGATGAATTGATTCATAAATGGACCTTTACGAGATAAAGAACCTTTATATACTGATGAATTGGTTCATAAATGAACCTTTACGAGATAAATAACCTTTATATACTGATGAATTGGTTCATAAATAGACCTTTACGAGATAAAGAACCTTTATATACTGGTGAATTGATTCATAAATGGACCTTTACGAGATAAATAACCTTTATTATTAATTCATTTTGTTTTTGAATTATTCCTGAACAAAGGAAAGATACAAACATTTGAAGTTCGAATAAAGAATAAGATGGGTAACACCCTTGAATGTTTTTTTTTTTTTAATATATTTGATAACTAAATTAAGTTTTTTTTTTTTGCTCTAAAATTGAAAATTAACAACAAAAATTTGAAATGATTACTTGTATTTCTAAATTGTTAGCATTATTTTATCATCAACGTTATAATATAGTATTTATAACTTTAATCTTATATTATAAGAAAGTAATTAGTATTTTATAA

mRNA sequence

ATGATAAGGACTGTGGCTGCATTGTTGCTAGTGACGGTGAGTTTGGTCAGGGCTCACCTCGAAGTTGAGTATGAGAGGATCAATATAAAGCTGCCACTTTCTAGGTATTACATTCATTTCGTTAACGATCTAAGCATCCTTGGTATGATGGTGCACTGCCAGTCGAAGGACGATGATTTGGGAGTTCATCATTTGCTTAATCGGGGAGATAATTACCAATTTAACTTTAGGAAAGTAATTAGTATTTTATAA

Coding sequence (CDS)

ATGATAAGGACTGTGGCTGCATTGTTGCTAGTGACGGTGAGTTTGGTCAGGGCTCACCTCGAAGTTGAGTATGAGAGGATCAATATAAAGCTGCCACTTTCTAGGTATTACATTCATTTCGTTAACGATCTAAGCATCCTTGGTATGATGGTGCACTGCCAGTCGAAGGACGATGATTTGGGAGTTCATCATTTGCTTAATCGGGGAGATAATTACCAATTTAACTTTAGGAAAGTAATTAGTATTTTATAA

Protein sequence

MIRTVAALLLVTVSLVRAHLEVEYERINIKLPLSRYYIHFVNDLSILGMMVHCQSKDDDLGVHHLLNRGDNYQFNFRKVISIL

Homology

[Close]

BLAST of CmaCh17G012320 vs. NCBI nr
Match: gi|659116532|ref|XP_008458117.1| (PREDICTED: uncharacterized protein LOC103497646 [Cucumis melo])

HSP 1 Score: 72.8 bits (177), Expect = 3.2e-10
Identity = 30/46 (65.22%), Postives = 39/46 (84.78%), Query Frame = 1


Query: 33 LSRYYIHFVNDLSILGMMVHCQSKDDDLGVHHLLNRGDNYQFNFRK 79
          ++RYYIH +N LS   ++VHCQSKDDDLG HHL NRGD+YQ+NF++
Sbjct: 19 VTRYYIHVMNGLSNADLIVHCQSKDDDLGYHHLANRGDDYQWNFKE 64

[Close]

BLAST of CmaCh17G012320 vs. NCBI nr
Match: gi|659124355|ref|XP_008462115.1| (PREDICTED: uncharacterized protein LOC103500543 [Cucumis melo])

HSP 1 Score: 69.7 bits (169), Expect = 2.7e-09
Identity = 29/45 (64.44%), Postives = 36/45 (80.00%), Query Frame = 1


Query: 34 SRYYIHFVNDLSILGMMVHCQSKDDDLGVHHLLNRGDNYQFNFRK 79
          SRY++H VN LS   + VHCQSK+DDLG HHL+NRGD YQ+NF +
Sbjct: 19 SRYFVHVVNGLSYQSLDVHCQSKNDDLGYHHLVNRGDEYQWNFEE 63

[Close]

BLAST of CmaCh17G012320 vs. NCBI nr
Match: gi|449443921|ref|XP_004139724.1| (PREDICTED: uncharacterized protein LOC101205731 [Cucumis sativus])

HSP 1 Score: 69.3 bits (168), Expect = 3.5e-09
Identity = 28/53 (52.83%), Postives = 41/53 (77.36%), Query Frame = 1


Query: 26 RINIKLPLSRYYIHFVNDLSILGMMVHCQSKDDDLGVHHLLNRGDNYQFNFRK 79
          ++ I+LP  RY+IH  NDL+   M  HCQSKDDDLG+ HL++RGD +++NF++
Sbjct: 14 KVVIRLPPVRYFIHVANDLTNQDMSAHCQSKDDDLGIQHLVHRGDEFRWNFKE 66

[Close]

BLAST of CmaCh17G012320 vs. NCBI nr
Match: gi|778730337|ref|XP_004139721.2| (PREDICTED: uncharacterized protein LOC101204770 [Cucumis sativus])

HSP 1 Score: 66.2 bits (160), Expect = 3.0e-08
Identity = 27/45 (60.00%), Postives = 35/45 (77.78%), Query Frame = 1


Query: 34 SRYYIHFVNDLSILGMMVHCQSKDDDLGVHHLLNRGDNYQFNFRK 79
          SRY++H VN LS   + VHCQSKD+DLG HHL+N GD +Q+NF +
Sbjct: 17 SRYFVHVVNGLSYQSLDVHCQSKDNDLGYHHLVNHGDEFQWNFEE 61

[Close]

BLAST of CmaCh17G012320 vs. NCBI nr
Match: gi|659124349|ref|XP_008462111.1| (PREDICTED: pumilio homolog 15-like [Cucumis melo])

HSP 1 Score: 65.9 bits (159), Expect = 3.9e-08
Identity = 28/45 (62.22%), Postives = 36/45 (80.00%), Query Frame = 1


Query: 34 SRYYIHFVNDLSILGMMVHCQSKDDDLGVHHLLNRGDNYQFNFRK 79
          SRY++H VN LS   + VHCQSKDDDLG H L+N GD++Q+NFR+
Sbjct: 19 SRYFVHVVNGLSYHNLDVHCQSKDDDLGYHCLVNHGDDFQWNFRE 63

The following BLAST results are available for this feature:

BLAST of CmaCh17G012320 vs. Swiss-Prot


Match Name	E-value	Identity	Description

BLAST of CmaCh17G012320 vs. TrEMBL


Match Name	E-value	Identity	Description

BLAST of CmaCh17G012320 vs. TAIR10


Match Name	E-value	Identity	Description

BLAST of CmaCh17G012320 vs. NCBI nr


Match Name	E-value	Identity	Description
gi\|659116532\|ref\|XP_008458117.1\|	3.2e-10	65.22	PREDICTED: uncharacterized protein LOC103497646 [Cucumis melo]	[more]
gi\|659124355\|ref\|XP_008462115.1\|	2.7e-09	64.44	PREDICTED: uncharacterized protein LOC103500543 [Cucumis melo]	[more]
gi\|449443921\|ref\|XP_004139724.1\|	3.5e-09	52.83	PREDICTED: uncharacterized protein LOC101205731 [Cucumis sativus]	[more]
gi\|778730337\|ref\|XP_004139721.2\|	3.0e-08	60.00	PREDICTED: uncharacterized protein LOC101204770 [Cucumis sativus]	[more]
gi\|659124349\|ref\|XP_008462111.1\|	3.9e-08	62.22	PREDICTED: pumilio homolog 15-like [Cucumis melo]	[more]

Annotated Terms

The following terms have been associated with this gene:

Vocabulary: **INTERPRO**
Term	Definition
IPR010264	Self-incomp_S1

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
CmaCh17G012320.1	CmaCh17G012320.1	mRNA

InterPro

Analysis Name: InterPro Annotations of Cucurbita maxima
Date Performed: 2017-05-20


IPR Term	IPR Description	Source	Source Term	Source Description	Alignment
IPR010264	Plant self-incompatibility S1	PFAM	PF05938	Self-incomp_S1	coord: 38..79 score: 8.

Synteny

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


Gene	Orthologue	Organism	Block
CmaCh17G012320	Cla97C09G172170	Watermelon (97103) v2	cmawmbB390

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

None

The following block(s) are covering this gene:


Gene	Organism	Block
CmaCh17G012320	Cucumber (Chinese Long) v3	cmacucB0457
CmaCh17G012320	Cucumber (Chinese Long) v3	cmacucB0462
CmaCh17G012320	Wax gourd	cmawgoB0493
CmaCh17G012320	Cucurbita maxima (Rimu)	cmacmaB378
CmaCh17G012320	Cucumber (Gy14) v1	cgycmaB0137
CmaCh17G012320	Cucumber (Gy14) v1	cgycmaB0138
CmaCh17G012320	Cucurbita moschata (Rifu)	cmacmoB353
CmaCh17G012320	Cucurbita moschata (Rifu)	cmacmoB369
CmaCh17G012320	Wild cucumber (PI 183967)	cmacpiB388
CmaCh17G012320	Cucumber (Chinese Long) v2	cmacuB384
CmaCh17G012320	Watermelon (Charleston Gray)	cmawcgB309
CmaCh17G012320	Watermelon (97103) v1	cmawmB331
CmaCh17G012320	Cucurbita pepo (Zucchini)	cmacpeB371
CmaCh17G012320	Cucurbita pepo (Zucchini)	cmacpeB385
CmaCh17G012320	Bottle gourd (USVL1VR-Ls)	cmalsiB346
CmaCh17G012320	Cucumber (Gy14) v2	cgybcmaB926
CmaCh17G012320	Cucumber (Gy14) v2	cgybcmaB920
CmaCh17G012320	Silver-seed gourd	carcmaB0107