Carg20620 (gene) Silver-seed gourd

Overview
NameCarg20620
Typegene
OrganismCucurbita argyrosperma (Silver-seed gourd)
DescriptionRNA-binding (RRM/RBD/RNP motifs) family protein
LocationCucurbita_argyrosperma_scaffold_100 : 198614 .. 199750 (+)
Genome Viewer
Sequences
The following sequences are available for this feature:

Gene sequence (with intron)

Legend: polypeptideexonCDS
Hold the cursor over a type above to highlight its positions in the sequence below.
ATGAAGTCTCAGAACATTGGGGTTGTATGCCCTGCATCTCTTTATTTCTGCCAATTGAATCATGTGTTATCTCAGTATTTTAGCCTCTTTTTTTTTTCTTTTTCTTTTTTCCTGTTTGTCTCTCTACACTATGACTTCAGCCCCTGCTGGTACTTCTCTTAGATGGATGTTTGAGTTATCTCATTTTTTATCTTTAATAATTTGATAGGCTCGAAGACGGAGAGGTAGAACCCCAACTCCTGGGAAATATCTTGGACTTGTTAGAACAGTTAGTGGTGAGATTTTAATCTAATGCTGGCTTATTGCTGTGAAGTGTGTTGATATTTCTGTCTAATCCGTTTCATTCTAACAGAGAGACACAGGTCGTCGCACAGCTACTCTTCTCGGCGTTCTCCTAGCTACTCTCCATATAGAAGCTCGAGTTGCTCATCTCATTATTCATCTGATCGTAGCAGGAGTAGATCCTATTCTGTTGACCGACGCCAAAGATCGTTCTCCCCTTATAGCCGTCGAAGATATGATTCTCCGGACTATAGGCATCATAGGTCATATTCTCGATCCCGCTCACCGTATAGGTTACCTACCAGGAGACGCGACAGGTCTTACTCACCTTATGACTGTTATTCGCCTGAACCTTACTATAGAAGGCACAGGCATTGGTCCCGGTCATATTCTCGATCCCGCTCACCGCATAGGACACCTACCAGGAGACGTGACAGGTCTTACTCACCTTATGATTGTTATTCCCCTGAACCTTACTATAGAAGGCACAGGCATCGGTCCCCTGAACCCTACTACAGAAGGCGCATGCATCGATCCCCTGAACCCTACTACAGAAGGCACAAGTATCGGTCAGTTTCTAGGAGCCTTTCACCGAGGAGGAGAACCTTAAGGAGTTACTCTCGCAGCCCCTCCCAGGAATGGAGGAGTAGTTACTCACGTAGTATTTCCTCCGTACGAAGCAGTAGATCAGGGAGCTATTCACGCAGTGTTTCTCCTGAATCAATGGGCTCAAGGAGTCGCTCTTGCAGCCATACCCCGAGACGACATTATGAGAGTCCACGTAAGAGAGGGCATTCTGGTGGGAGTCAATCGAGAAGTCAAAGTGTGGTTTCAAGGTCTGTTAGTCCTGCTTGA

mRNA sequence

ATGAAGTCTCAGAACATTGGGGTTGCTCGAAGACGGAGAGGTAGAACCCCAACTCCTGGGAAATATCTTGGACTTGTTAGAACAGTTAGTGAGAGACACAGGTCGTCGCACAGCTACTCTTCTCGGCGTTCTCCTAGCTACTCTCCATATAGAAGCTCGAGTTGCTCATCTCATTATTCATCTGATCGTAGCAGGAGTAGATCCTATTCTGTTGACCGACGCCAAAGATCGTTCTCCCCTTATAGCCGTCGAAGATATGATTCTCCGGACTATAGGCATCATAGGTCATATTCTCGATCCCGCTCACCGTATAGGTTACCTACCAGGAGACGCGACAGGTCTTACTCACCTTATGACTGTTATTCGCCTGAACCTTACTATAGAAGGCACAGGCATTGGTCCCGGTCATATTCTCGATCCCGCTCACCGCATAGGACACCTACCAGGAGACGTGACAGGTCTTACTCACCTTATGATTGTTATTCCCCTGAACCTTACTATAGAAGGCACAGGCATCGGTCCCCTGAACCCTACTACAGAAGGCGCATGCATCGATCCCCTGAACCCTACTACAGAAGGCACAAGTATCGGTCAGTTTCTAGGAGCCTTTCACCGAGGAGGAGAACCTTAAGGAGTTACTCTCGCAGCCCCTCCCAGGAATGGAGGAGTAGTTACTCACGTAGTATTTCCTCCGTACGAAGCAGTAGATCAGGGAGCTATTCACGCAGTGTTTCTCCTGAATCAATGGGCTCAAGGAGTCGCTCTTGCAGCCATACCCCGAGACGACATTATGAGAGTCCACGTAAGAGAGGGCATTCTGGTGGGAGTCAATCGAGAAGTCAAAGTGTGGTTTCAAGGTCTGTTAGTCCTGCTTGA

Coding sequence (CDS)

ATGAAGTCTCAGAACATTGGGGTTGCTCGAAGACGGAGAGGTAGAACCCCAACTCCTGGGAAATATCTTGGACTTGTTAGAACAGTTAGTGAGAGACACAGGTCGTCGCACAGCTACTCTTCTCGGCGTTCTCCTAGCTACTCTCCATATAGAAGCTCGAGTTGCTCATCTCATTATTCATCTGATCGTAGCAGGAGTAGATCCTATTCTGTTGACCGACGCCAAAGATCGTTCTCCCCTTATAGCCGTCGAAGATATGATTCTCCGGACTATAGGCATCATAGGTCATATTCTCGATCCCGCTCACCGTATAGGTTACCTACCAGGAGACGCGACAGGTCTTACTCACCTTATGACTGTTATTCGCCTGAACCTTACTATAGAAGGCACAGGCATTGGTCCCGGTCATATTCTCGATCCCGCTCACCGCATAGGACACCTACCAGGAGACGTGACAGGTCTTACTCACCTTATGATTGTTATTCCCCTGAACCTTACTATAGAAGGCACAGGCATCGGTCCCCTGAACCCTACTACAGAAGGCGCATGCATCGATCCCCTGAACCCTACTACAGAAGGCACAAGTATCGGTCAGTTTCTAGGAGCCTTTCACCGAGGAGGAGAACCTTAAGGAGTTACTCTCGCAGCCCCTCCCAGGAATGGAGGAGTAGTTACTCACGTAGTATTTCCTCCGTACGAAGCAGTAGATCAGGGAGCTATTCACGCAGTGTTTCTCCTGAATCAATGGGCTCAAGGAGTCGCTCTTGCAGCCATACCCCGAGACGACATTATGAGAGTCCACGTAAGAGAGGGCATTCTGGTGGGAGTCAATCGAGAAGTCAAAGTGTGGTTTCAAGGTCTGTTAGTCCTGCTTGA

Protein sequence

MKSQNIGVARRRRGRTPTPGKYLGLVRTVSERHRSSHSYSSRRSPSYSPYRSSSCSSHYSSDRSRSRSYSVDRRQRSFSPYSRRRYDSPDYRHHRSYSRSRSPYRLPTRRRDRSYSPYDCYSPEPYYRRHRHWSRSYSRSRSPHRTPTRRRDRSYSPYDCYSPEPYYRRHRHRSPEPYYRRRMHRSPEPYYRRHKYRSVSRSLSPRRRTLRSYSRSPSQEWRSSYSRSISSVRSSRSGSYSRSVSPESMGSRSRSCSHTPRRHYESPRKRGHSGGSQSRSQSVVSRSVSPA
Homology
[Close]
BLAST of Carg20620 vs. NCBI nr
Match: XP_023519577.1 (serine/arginine-rich splicing factor SR45a-like [Cucurbita pepo subsp. pepo])

HSP 1 Score: 83.2 bits (204), Expect = 1.6e-12
Identity = 40/40 (100.00%), Postives = 40/40 (100.00%), Query Frame = 0 

Query: 1  MKSQNIGVARRRRGRTPTPGKYLGLVRTVSERHRSSHSYS 41
          MKSQNIGVARRRRGRTPTPGKYLGLVRTVSERHRSSHSYS
Sbjct: 1  MKSQNIGVARRRRGRTPTPGKYLGLVRTVSERHRSSHSYS 40

[Close]
BLAST of Carg20620 vs. NCBI nr
Match: XP_022964743.1 (serine/arginine-rich splicing factor SR45a-like isoform X1 [Cucurbita moschata])

HSP 1 Score: 67.8 bits (164), Expect = 7.0e-08
Identity = 32/32 (100.00%), Postives = 32/32 (100.00%), Query Frame = 0 

Query: 9   ARRRRGRTPTPGKYLGLVRTVSERHRSSHSYS 41
           ARRRRGRTPTPGKYLGLVRTVSERHRSSHSYS
Sbjct: 118 ARRRRGRTPTPGKYLGLVRTVSERHRSSHSYS 149

[Close]
BLAST of Carg20620 vs. NCBI nr
Match: XP_022964744.1 (serine/arginine-rich splicing factor SR45a-like isoform X2 [Cucurbita moschata])

HSP 1 Score: 67.8 bits (164), Expect = 7.0e-08
Identity = 32/32 (100.00%), Postives = 32/32 (100.00%), Query Frame = 0 

Query: 9   ARRRRGRTPTPGKYLGLVRTVSERHRSSHSYS 41
           ARRRRGRTPTPGKYLGLVRTVSERHRSSHSYS
Sbjct: 118 ARRRRGRTPTPGKYLGLVRTVSERHRSSHSYS 149

[Close]
BLAST of Carg20620 vs. NCBI nr
Match: XP_023521445.1 (serine/arginine-rich splicing factor SR45a-like [Cucurbita pepo subsp. pepo])

HSP 1 Score: 67.8 bits (164), Expect = 7.0e-08
Identity = 32/32 (100.00%), Postives = 32/32 (100.00%), Query Frame = 0 

Query: 9   ARRRRGRTPTPGKYLGLVRTVSERHRSSHSYS 41
           ARRRRGRTPTPGKYLGLVRTVSERHRSSHSYS
Sbjct: 118 ARRRRGRTPTPGKYLGLVRTVSERHRSSHSYS 149

[Close]
BLAST of Carg20620 vs. NCBI nr
Match: XP_023522126.1 (serine/arginine-rich splicing factor SR45a-like [Cucurbita pepo subsp. pepo])

HSP 1 Score: 67.8 bits (164), Expect = 7.0e-08
Identity = 32/32 (100.00%), Postives = 32/32 (100.00%), Query Frame = 0 

Query: 9   ARRRRGRTPTPGKYLGLVRTVSERHRSSHSYS 41
           ARRRRGRTPTPGKYLGLVRTVSERHRSSHSYS
Sbjct: 118 ARRRRGRTPTPGKYLGLVRTVSERHRSSHSYS 149

[Close]
BLAST of Carg20620 vs. TAIR10
Match: AT1G07350.1 (RNA-binding (RRM/RBD/RNP motifs) family protein)

HSP 1 Score: 44.7 bits (104), Expect = 1.2e-04
Identity = 25/32 (78.12%), Postives = 26/32 (81.25%), Query Frame = 0 

Query: 9   ARRRRGRTPTPGKYLGLVRTVSERHRSSHSYS 41
           ARRRRGRTPTPGKYLGL RT   RH+S  SYS
Sbjct: 151 ARRRRGRTPTPGKYLGL-RTARGRHKSP-SYS 180

The following BLAST results are available for this feature:
BLAST of Carg20620 vs. NCBI nr
Match NameE-valueIdentityDescription
XP_023519577.11.6e-12100.00serine/arginine-rich splicing factor SR45a-like [Cucurbita pepo subsp. pepo][more]
XP_022964743.17.0e-08100.00serine/arginine-rich splicing factor SR45a-like isoform X1 [Cucurbita moschata][more]
XP_022964744.17.0e-08100.00serine/arginine-rich splicing factor SR45a-like isoform X2 [Cucurbita moschata][more]
XP_023521445.17.0e-08100.00serine/arginine-rich splicing factor SR45a-like [Cucurbita pepo subsp. pepo][more]
XP_023522126.17.0e-08100.00serine/arginine-rich splicing factor SR45a-like [Cucurbita pepo subsp. pepo][more]
BLAST of Carg20620 vs. TAIR10
Match NameE-valueIdentityDescription
AT1G07350.11.2e-0478.13RNA-binding (RRM/RBD/RNP motifs) family protein[more]
BLAST of Carg20620 vs. Swiss-Prot
Match NameE-valueIdentityDescription
BLAST of Carg20620 vs. TrEMBL
Match NameE-valueIdentityDescription
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 NameUnique NameType
Carg20620-RACarg20620-RAmRNA


InterPro
Analysis Name: InterPro Annotations of silver-seed gourd
Date Performed: 2019-03-07
IPR TermIPR DescriptionSourceSource TermSource DescriptionAlignment
NoneNo IPR availableMOBIDB_LITEmobidb-litedisorder_predictioncoord: 205..255
NoneNo IPR availableMOBIDB_LITEmobidb-litedisorder_predictioncoord: 65..97
NoneNo IPR availableMOBIDB_LITEmobidb-litedisorder_predictioncoord: 271..291
NoneNo IPR availableMOBIDB_LITEmobidb-litedisorder_predictioncoord: 1..291
NoneNo IPR availableMOBIDB_LITEmobidb-litedisorder_predictioncoord: 186..204
NoneNo IPR availableMOBIDB_LITEmobidb-litedisorder_predictioncoord: 132..148
NoneNo IPR availableMOBIDB_LITEmobidb-litedisorder_predictioncoord: 1..17
NoneNo IPR availableMOBIDB_LITEmobidb-litedisorder_predictioncoord: 40..64
NoneNo IPR availablePANTHERPTHR15241:SF4SERINE/ARGININE-RICH SPLICING FACTOR SR45Acoord: 9..133
NoneNo IPR availablePANTHERPTHR15241TRANSFORMER-2-RELATEDcoord: 9..133

Synteny
The following gene(s) are orthologous to this gene:
GeneOrthologueOrganismBlock
Carg20620Cp4.1LG20g08140Cucurbita pepo (Zucchini)carcpeB0531
The following gene(s) are paralogous to this gene:

None

The following block(s) are covering this gene:
GeneOrganismBlock
Carg20620Silver-seed gourdcarcarB408
Carg20620Cucumber (Gy14) v2carcgybB0391
Carg20620Cucumber (Gy14) v2carcgybB0390
Carg20620Cucumber (Gy14) v1carcgyB0444
Carg20620Cucumber (Gy14) v1carcgyB0445
Carg20620Cucurbita maxima (Rimu)carcmaB0531
Carg20620Cucurbita maxima (Rimu)carcmaB0532
Carg20620Cucurbita maxima (Rimu)carcmaB0533
Carg20620Cucurbita moschata (Rifu)carcmoB0517
Carg20620Cucurbita moschata (Rifu)carcmoB0518
Carg20620Cucurbita moschata (Rifu)carcmoB0519
Carg20620Cucurbita pepo (Zucchini)carcpeB0533
Carg20620Cucurbita pepo (Zucchini)carcpeB0534
Carg20620Cucurbita pepo (Zucchini)carcpeB0535
Carg20620Wild cucumber (PI 183967)carcpiB0415
Carg20620Wild cucumber (PI 183967)carcpiB0416
Carg20620Cucumber (Chinese Long) v2carcuB0412
Carg20620Cucumber (Chinese Long) v2carcuB0413
Carg20620Cucumber (Chinese Long) v3carcucB0414
Carg20620Cucumber (Chinese Long) v3carcucB0416
Carg20620Bottle gourd (USVL1VR-Ls)carlsiB348
Carg20620Bottle gourd (USVL1VR-Ls)carlsiB349
Carg20620Melon (DHL92) v3.5.1carmeB0387
Carg20620Melon (DHL92) v3.5.1carmeB0388
Carg20620Melon (DHL92) v3.6.1carmedB0391
Carg20620Melon (DHL92) v3.6.1carmedB0392
Carg20620Watermelon (Charleston Gray)carwcgB0374
Carg20620Watermelon (Charleston Gray)carwcgB0375
Carg20620Watermelon (97103) v1carwmB0376
Carg20620Watermelon (97103) v1carwmB0377
Carg20620Watermelon (97103) v2carwmbB0403
Carg20620Watermelon (97103) v2carwmbB0404
Carg20620Wax gourdcarwgoB0467
Carg20620Wax gourdcarwgoB0468