CmaCh04G012260 (gene) Cucurbita maxima (Rimu)

Overview
NameCmaCh04G012260
Typegene
OrganismCucurbita maxima (Cucurbita maxima (Rimu))
DescriptionSerine/arginine-rich splicing factor 4
LocationCma_Chr04 : 6254625 .. 6256472 (+)
Genome Viewer
Sequences
The following sequences are available for this feature:

Gene sequence (with intron)

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

mRNA sequence

ATGCAATCAGTCCAAAGCACACATAAAAGGGATGGATTCGAACTGAAGTTTTATCGGAGAGGGAAAGAGATTCAGAAAAGCGTCGGAAACCGAGGGAAATCTTTGGAAGGTTTCGTATTCTTTCCAGGTGCGCCTCCTTCGAATTTTCTAGACAAAATGCCAAGGTACGACGATCGTTATGGTGGTACTCGGCTCTACGTTGGGCGCCTGTCTTCACGGACGAGGTCCCGTGATCTGGATGACTTGTTCGGTCGTTATGGAAGGTTTTTTGGCTTATGTCAAACCTGGAGGTCTATGGTGAGAGGGTTCCCTTGGTGGATTTGGCGAGTCTTTCTATTATGTTATTGCCTGTTTTTATGGAAATGCCAAGAATCTCAGAATGGTGTTTAG

Coding sequence (CDS)

ATGCAATCAGTCCAAAGCACACATAAAAGGGATGGATTCGAACTGAAGTTTTATCGGAGAGGGAAAGAGATTCAGAAAAGCGTCGGAAACCGAGGGAAATCTTTGGAAGGTTTCGTATTCTTTCCAGGTGCGCCTCCTTCGAATTTTCTAGACAAAATGCCAAGGTACGACGATCGTTATGGTGGTACTCGGCTCTACGTTGGGCGCCTGTCTTCACGGACGAGGTCCCGTGATCTGGATGACTTGTTCGGTCGTTATGGAAGGTTTTTTGGCTTATGTCAAACCTGGAGGTCTATGGTGAGAGGGTTCCCTTGGTGGATTTGGCGAGTCTTTCTATTATGTTATTGCCTGTTTTTATGGAAATGCCAAGAATCTCAGAATGGTGTTTAG

Protein sequence

MQSVQSTHKRDGFELKFYRRGKEIQKSVGNRGKSLEGFVFFPGAPPSNFLDKMPRYDDRYGGTRLYVGRLSSRTRSRDLDDLFGRYGRFFGLCQTWRSMVRGFPWWIWRVFLLCYCLFLWKCQESQNGV
Homology
[Close]
BLAST of CmaCh04G012260 vs. Swiss-Prot
Match: RSZ32_ARATH (Serine/arginine-rich splicing factor RS2Z32 OS=Arabidopsis thaliana GN=RS2Z32 PE=1 SV=1)

HSP 1 Score: 69.3 bits (168), Expect = 3.4e-11
Identity = 31/36 (86.11%), Postives = 33/36 (91.67%), Query Frame = 1 

Query: 53 MPRYDDRYGGTRLYVGRLSSRTRSRDLDDLFGRYGR 89
          MPRYDDRYG TRLYVGRLSSRTR+RDL+ LF RYGR
Sbjct: 1  MPRYDDRYGNTRLYVGRLSSRTRTRDLERLFSRYGR 36

[Close]
BLAST of CmaCh04G012260 vs. Swiss-Prot
Match: RSZ33_ARATH (Serine/arginine-rich splicing factor RS2Z33 OS=Arabidopsis thaliana GN=RS2Z33 PE=1 SV=1)

HSP 1 Score: 69.3 bits (168), Expect = 3.4e-11
Identity = 31/36 (86.11%), Postives = 33/36 (91.67%), Query Frame = 1 

Query: 53 MPRYDDRYGGTRLYVGRLSSRTRSRDLDDLFGRYGR 89
          MPRYDDRYG TRLYVGRLSSRTR+RDL+ LF RYGR
Sbjct: 1  MPRYDDRYGNTRLYVGRLSSRTRTRDLERLFSRYGR 36

[Close]
BLAST of CmaCh04G012260 vs. TrEMBL
Match: D7TQD0_VITVI (Putative uncharacterized protein OS=Vitis vinifera GN=VIT_08s0040g02850 PE=4 SV=1)

HSP 1 Score: 99.4 bits (246), Expect = 3.5e-18
Identity = 43/54 (79.63%), Postives = 46/54 (85.19%), Query Frame = 1 

Query: 53  MPRYDDRYGGTRLYVGRLSSRTRSRDLDDLFGRYGRFFGLCQTWRSMVRGFPWW 107
           MPRYDDRYG TRLYVGRLSSRTR+RDL+ LF RYGRF G C TWRSMV G+ WW
Sbjct: 1   MPRYDDRYGNTRLYVGRLSSRTRTRDLESLFSRYGRFLGFCLTWRSMVGGWNWW 54

[Close]
BLAST of CmaCh04G012260 vs. TrEMBL
Match: M1HA94_MAIZE (Arginine/serine-rich splicing factor RS2Z39 transcript V OS=Zea mays GN=RS2Z39 PE=2 SV=1)

HSP 1 Score: 96.3 bits (238), Expect = 2.9e-17
Identity = 43/56 (76.79%), Postives = 48/56 (85.71%), Query Frame = 1 

Query: 53  MPRYDDRYGGTRLYVGRLSSRTRSRDLDDLFGRYGRFFGLCQTWRSMVRGFPWWIW 109
           MPRYDDRYGGTRLYVGRL++RTRSRDL+ LFGRYGRFFG  +  RS+V G PWW W
Sbjct: 1   MPRYDDRYGGTRLYVGRLATRTRSRDLEHLFGRYGRFFGFYR--RSLVEGCPWWTW 54

[Close]
BLAST of CmaCh04G012260 vs. TrEMBL
Match: A0A061ERP0_THECC (RNA-binding family protein with retrovirus zinc finger-like domain, putative OS=Theobroma cacao GN=TCM_022039 PE=4 SV=1)

HSP 1 Score: 87.4 bits (215), Expect = 1.4e-14
Identity = 38/50 (76.00%), Postives = 42/50 (84.00%), Query Frame = 1 

Query: 53  MPRYDDRYGGTRLYVGRLSSRTRSRDLDDLFGRYGRFFGLCQTWRSMVRG 103
           MPR+D RYG TRLYVGRLSSRTR+RDL+ +F RYGRF G C TWR MVRG
Sbjct: 1   MPRFDGRYGTTRLYVGRLSSRTRARDLEHIFSRYGRFLGFCLTWRPMVRG 50

[Close]
BLAST of CmaCh04G012260 vs. TrEMBL
Match: A0A0B0MR15_GOSAR (Serine/arginine-rich splicing factor 6 OS=Gossypium arboreum GN=F383_06032 PE=4 SV=1)

HSP 1 Score: 85.5 bits (210), Expect = 5.2e-14
Identity = 38/50 (76.00%), Postives = 42/50 (84.00%), Query Frame = 1 

Query: 53  MPRYDDRYGGTRLYVGRLSSRTRSRDLDDLFGRYGRFFGLCQTWRSMVRG 103
           M RYDDRY  TRLYVGR+SSRTR+RDL+ LF RYGRF G CQTWR +VRG
Sbjct: 1   MRRYDDRYCHTRLYVGRISSRTRTRDLERLFSRYGRFLGFCQTWRPVVRG 50

[Close]
BLAST of CmaCh04G012260 vs. TrEMBL
Match: A0A0B0MIH0_GOSAR (Serine/arginine-rich splicing factor 4 OS=Gossypium arboreum GN=F383_06032 PE=4 SV=1)

HSP 1 Score: 85.5 bits (210), Expect = 5.2e-14
Identity = 38/50 (76.00%), Postives = 42/50 (84.00%), Query Frame = 1 

Query: 53  MPRYDDRYGGTRLYVGRLSSRTRSRDLDDLFGRYGRFFGLCQTWRSMVRG 103
           M RYDDRY  TRLYVGR+SSRTR+RDL+ LF RYGRF G CQTWR +VRG
Sbjct: 1   MRRYDDRYCHTRLYVGRISSRTRTRDLERLFSRYGRFLGFCQTWRPVVRG 50

[Close]
BLAST of CmaCh04G012260 vs. TAIR10
Match: AT2G37340.1 (AT2G37340.1 arginine/serine-rich zinc knuckle-containing protein 33)

HSP 1 Score: 69.3 bits (168), Expect = 1.9e-12
Identity = 31/36 (86.11%), Postives = 33/36 (91.67%), Query Frame = 1 

Query: 53 MPRYDDRYGGTRLYVGRLSSRTRSRDLDDLFGRYGR 89
          MPRYDDRYG TRLYVGRLSSRTR+RDL+ LF RYGR
Sbjct: 1  MPRYDDRYGNTRLYVGRLSSRTRTRDLERLFSRYGR 36

[Close]
BLAST of CmaCh04G012260 vs. TAIR10
Match: AT3G53500.2 (AT3G53500.2 RNA-binding (RRM/RBD/RNP motifs) family protein with retrovirus zinc finger-like domain)

HSP 1 Score: 69.3 bits (168), Expect = 1.9e-12
Identity = 31/36 (86.11%), Postives = 33/36 (91.67%), Query Frame = 1 

Query: 53 MPRYDDRYGGTRLYVGRLSSRTRSRDLDDLFGRYGR 89
          MPRYDDRYG TRLYVGRLSSRTR+RDL+ LF RYGR
Sbjct: 1  MPRYDDRYGNTRLYVGRLSSRTRTRDLERLFSRYGR 36

[Close]
BLAST of CmaCh04G012260 vs. NCBI nr
Match: gi|297741518|emb|CBI32650.3| (unnamed protein product [Vitis vinifera])

HSP 1 Score: 99.4 bits (246), Expect = 5.0e-18
Identity = 43/54 (79.63%), Postives = 46/54 (85.19%), Query Frame = 1 

Query: 53  MPRYDDRYGGTRLYVGRLSSRTRSRDLDDLFGRYGRFFGLCQTWRSMVRGFPWW 107
           MPRYDDRYG TRLYVGRLSSRTR+RDL+ LF RYGRF G C TWRSMV G+ WW
Sbjct: 1   MPRYDDRYGNTRLYVGRLSSRTRTRDLESLFSRYGRFLGFCLTWRSMVGGWNWW 54

[Close]
BLAST of CmaCh04G012260 vs. NCBI nr
Match: gi|448878168|gb|AGE46047.1| (arginine/serine-rich splicing factor RS2Z39 transcript V [Zea mays])

HSP 1 Score: 96.3 bits (238), Expect = 4.2e-17
Identity = 43/56 (76.79%), Postives = 48/56 (85.71%), Query Frame = 1 

Query: 53  MPRYDDRYGGTRLYVGRLSSRTRSRDLDDLFGRYGRFFGLCQTWRSMVRGFPWWIW 109
           MPRYDDRYGGTRLYVGRL++RTRSRDL+ LFGRYGRFFG  +  RS+V G PWW W
Sbjct: 1   MPRYDDRYGGTRLYVGRLATRTRSRDLEHLFGRYGRFFGFYR--RSLVEGCPWWTW 54

[Close]
BLAST of CmaCh04G012260 vs. NCBI nr
Match: gi|590630022|ref|XP_007027153.1| (RNA-binding family protein with retrovirus zinc finger-like domain, putative [Theobroma cacao])

HSP 1 Score: 87.4 bits (215), Expect = 2.0e-14
Identity = 38/50 (76.00%), Postives = 42/50 (84.00%), Query Frame = 1 

Query: 53  MPRYDDRYGGTRLYVGRLSSRTRSRDLDDLFGRYGRFFGLCQTWRSMVRG 103
           MPR+D RYG TRLYVGRLSSRTR+RDL+ +F RYGRF G C TWR MVRG
Sbjct: 1   MPRFDGRYGTTRLYVGRLSSRTRARDLEHIFSRYGRFLGFCLTWRPMVRG 50

[Close]
BLAST of CmaCh04G012260 vs. NCBI nr
Match: gi|728815732|gb|KHG01944.1| (Serine/arginine-rich splicing factor 6 [Gossypium arboreum])

HSP 1 Score: 85.5 bits (210), Expect = 7.4e-14
Identity = 38/50 (76.00%), Postives = 42/50 (84.00%), Query Frame = 1 

Query: 53  MPRYDDRYGGTRLYVGRLSSRTRSRDLDDLFGRYGRFFGLCQTWRSMVRG 103
           M RYDDRY  TRLYVGR+SSRTR+RDL+ LF RYGRF G CQTWR +VRG
Sbjct: 1   MRRYDDRYCHTRLYVGRISSRTRTRDLERLFSRYGRFLGFCQTWRPVVRG 50

[Close]
BLAST of CmaCh04G012260 vs. NCBI nr
Match: gi|728815731|gb|KHG01943.1| (Serine/arginine-rich splicing factor 4 [Gossypium arboreum])

HSP 1 Score: 85.5 bits (210), Expect = 7.4e-14
Identity = 38/50 (76.00%), Postives = 42/50 (84.00%), Query Frame = 1 

Query: 53  MPRYDDRYGGTRLYVGRLSSRTRSRDLDDLFGRYGRFFGLCQTWRSMVRG 103
           M RYDDRY  TRLYVGR+SSRTR+RDL+ LF RYGRF G CQTWR +VRG
Sbjct: 1   MRRYDDRYCHTRLYVGRISSRTRTRDLERLFSRYGRFLGFCQTWRPVVRG 50

The following BLAST results are available for this feature:
BLAST of CmaCh04G012260 vs. Swiss-Prot
Match NameE-valueIdentityDescription
RSZ32_ARATH3.4e-1186.11Serine/arginine-rich splicing factor RS2Z32 OS=Arabidopsis thaliana GN=RS2Z32 PE... [more]
RSZ33_ARATH3.4e-1186.11Serine/arginine-rich splicing factor RS2Z33 OS=Arabidopsis thaliana GN=RS2Z33 PE... [more]
BLAST of CmaCh04G012260 vs. TrEMBL
Match NameE-valueIdentityDescription
D7TQD0_VITVI3.5e-1879.63Putative uncharacterized protein OS=Vitis vinifera GN=VIT_08s0040g02850 PE=4 SV=... [more]
M1HA94_MAIZE2.9e-1776.79Arginine/serine-rich splicing factor RS2Z39 transcript V OS=Zea mays GN=RS2Z39 P... [more]
A0A061ERP0_THECC1.4e-1476.00RNA-binding family protein with retrovirus zinc finger-like domain, putative OS=... [more]
A0A0B0MR15_GOSAR5.2e-1476.00Serine/arginine-rich splicing factor 6 OS=Gossypium arboreum GN=F383_06032 PE=4 ... [more]
A0A0B0MIH0_GOSAR5.2e-1476.00Serine/arginine-rich splicing factor 4 OS=Gossypium arboreum GN=F383_06032 PE=4 ... [more]
BLAST of CmaCh04G012260 vs. TAIR10
Match NameE-valueIdentityDescription
AT2G37340.11.9e-1286.11 arginine/serine-rich zinc knuckle-containing protein 33[more]
AT3G53500.21.9e-1286.11 RNA-binding (RRM/RBD/RNP motifs) family protein with retrovirus zinc... [more]
BLAST of CmaCh04G012260 vs. NCBI nr
Match NameE-valueIdentityDescription
gi|297741518|emb|CBI32650.3|5.0e-1879.63unnamed protein product [Vitis vinifera][more]
gi|448878168|gb|AGE46047.1|4.2e-1776.79arginine/serine-rich splicing factor RS2Z39 transcript V [Zea mays][more]
gi|590630022|ref|XP_007027153.1|2.0e-1476.00RNA-binding family protein with retrovirus zinc finger-like domain, putative [Th... [more]
gi|728815732|gb|KHG01944.1|7.4e-1476.00Serine/arginine-rich splicing factor 6 [Gossypium arboreum][more]
gi|728815731|gb|KHG01943.1|7.4e-1476.00Serine/arginine-rich splicing factor 4 [Gossypium arboreum][more]
Annotated Terms
The following terms have been associated with this gene:
Vocabulary: INTERPRO
TermDefinition
IPR012677Nucleotide-bd_a/b_plait_sf
Vocabulary: Molecular Function
TermDefinition
GO:0000166nucleotide binding
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:0003676 nucleic acid binding
molecular_function GO:0000166 nucleotide binding
Relationships

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

Feature NameUnique NameType
CmaCh04G012260.1CmaCh04G012260.1mRNA


InterPro
Analysis Name: InterPro Annotations of Cucurbita maxima
Date Performed: 2017-05-20
IPR TermIPR DescriptionSourceSource TermSource DescriptionAlignment
IPR012677Nucleotide-binding alpha-beta plait domainGENE3DG3DSA:3.30.70.330coord: 54..89
score: 1.
IPR012677Nucleotide-binding alpha-beta plait domainunknownSSF54928RNA-binding domain, RBDcoord: 26..89
score: 1.1

Synteny
The following gene(s) are orthologous to this gene:
GeneOrthologueOrganismBlock
CmaCh04G012260CmoCh04G012970Cucurbita moschata (Rifu)cmacmoB728
CmaCh04G012260CsaV3_5G006510Cucumber (Chinese Long) v3cmacucB0884
CmaCh04G012260Carg26905Silver-seed gourdcarcmaB1040
CmaCh04G012260Carg23771Silver-seed gourdcarcmaB1199
The following gene(s) are paralogous to this gene:

None

The following block(s) are covering this gene:
GeneOrganismBlock
CmaCh04G012260Cucumber (Chinese Long) v3cmacucB0832
CmaCh04G012260Cucumber (Chinese Long) v3cmacucB0853
CmaCh04G012260Cucumber (Chinese Long) v3cmacucB0916
CmaCh04G012260Watermelon (97103) v2cmawmbB719
CmaCh04G012260Watermelon (97103) v2cmawmbB740
CmaCh04G012260Watermelon (97103) v2cmawmbB742
CmaCh04G012260Wax gourdcmawgoB0825
CmaCh04G012260Wax gourdcmawgoB0892
CmaCh04G012260Cucurbita maxima (Rimu)cmacmaB272
CmaCh04G012260Cucurbita maxima (Rimu)cmacmaB487
CmaCh04G012260Cucurbita maxima (Rimu)cmacmaB531
CmaCh04G012260Cucumber (Gy14) v1cgycmaB0472
CmaCh04G012260Cucumber (Gy14) v1cgycmaB1049
CmaCh04G012260Cucurbita moschata (Rifu)cmacmoB720
CmaCh04G012260Cucurbita moschata (Rifu)cmacmoB723
CmaCh04G012260Cucurbita moschata (Rifu)cmacmoB731
CmaCh04G012260Wild cucumber (PI 183967)cmacpiB756
CmaCh04G012260Cucumber (Chinese Long) v2cmacuB746
CmaCh04G012260Melon (DHL92) v3.5.1cmameB652
CmaCh04G012260Watermelon (Charleston Gray)cmawcgB641
CmaCh04G012260Watermelon (97103) v1cmawmB723
CmaCh04G012260Cucurbita pepo (Zucchini)cmacpeB720
CmaCh04G012260Cucurbita pepo (Zucchini)cmacpeB723
CmaCh04G012260Cucurbita pepo (Zucchini)cmacpeB752
CmaCh04G012260Bottle gourd (USVL1VR-Ls)cmalsiB631
CmaCh04G012260Bottle gourd (USVL1VR-Ls)cmalsiB666
CmaCh04G012260Bottle gourd (USVL1VR-Ls)cmalsiB676
CmaCh04G012260Cucumber (Gy14) v2cgybcmaB412
CmaCh04G012260Cucumber (Gy14) v2cgybcmaB555
CmaCh04G012260Cucumber (Gy14) v2cgybcmaB673
CmaCh04G012260Melon (DHL92) v3.6.1cmamedB739
CmaCh04G012260Melon (DHL92) v3.6.1cmamedB771
CmaCh04G012260Silver-seed gourdcarcmaB0428