CmoCh04G012970 (gene) Cucurbita moschata (Rifu) v1

Overview


Name	CmoCh04G012970
Type	gene
Organism	Cucurbita moschata (Cucurbita moschata (Rifu) v1)
Description	Serine/arginine-rich splicing factor RS2Z32
Location	Cmo_Chr04: 6591296 .. 6593106 (+)
RNA-Seq Expression	CmoCh04G012970
Synteny	CmoCh04G012970

Sequences

The following sequences are available for this feature:

Gene sequence (with intron)

Legend: exonCDSpolypeptide

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

ATGAACAATCGAACACTAAACGCACTAACTTTCTCACACCGGAATCAGCCGATCGGAAGTCGATTGAAGAAACCCGGGAACAAAAATTCGAGGAGATCAGAACGAAAAAAAAAAAGAAAAAAACTAAAACAGCACAATAACAAAACAAACTATTTCCTAATTGCAAAACGATTAGAAAGTATGAGAATCTCGAAGAATTCCAAATGCAATCAGTCCAAAGCACACATAAAAGGGATGGATTCGAACTGAAGTTTTATCGGAGAGGGAAAGAGATTAAGAAAAGCGTCGGAAACCGAGGGAAATCTTTGGAAGTGGAGGGGGATGATTATTTTTAGTTTGGTATTCTTTTGCCCTTTTCCGTTTTTCTCTTGCAAAATTTTTCTTTCCCGTCTTAAAACGCATTGACTATTTTATTTATACGAACAGTTGTATCAGTCAAATTGCATTTTCGCTTTTTATTTTTTATTTTGTGTATTAAATTATACAAAATCGCCCCTAGGTTTTTATTATGTCCTAAATTTGGAAATGTTTTTATTAAAATTAAAAAAAACCACCTTCCAATTTGTTTTTTTTAATTATATATAATTATATATTTTTTAGTTCAACCATATACAAGTAATTTATTTCATGACATATTAAACCGCTAAATAAATAAGTAAGAAAGTACCAAATCTAGACCCATTTGGATTTTAATTTTTAATTTTTAATTTTTGAAAATTAAATTTATAACATAAAATCCATGTCAAAGTTTTAAACCTAAAAATACAAGAATACCAAATAGTTTTCTATTGGGCTTAAAAGTAGCCCAATCAACCTGTTTTAGTCGGCGCGGCCCACAACAATTGAGCCCACAACAATTGTTATCTGTAAAATTGGGCCTACGGCTGTTCCATAAAAAGAAATCGGTATAAAAATATCTGGAGAGGCTTACGGAAATCATTTTTTTTCATGCTGAAGACGGGAAATTTAGGGTTTCGTATTCTATCCAGGTGCGCCTCCTTCGAATTCTCTAGGTTTGCTCTCCTCGAAGCATTCGGGTCAAAATTCATAGCATATTTCTATTGATTTTTTTTTTTGAGCCCAATTAAGGTTTTGTATAGTCTCTATTTAGATTAAACAAATAGTTACTGGTTTGTTTATACTGTCAGTGATTGTGGTGGTACTGCGATTGTCAATTGTAGATAAAATGCCAAGGTACGACGATCGTTACGGTGGTACTCGGCTCTACGTTGGGCGCCTGTCTTCACGGACGAGGTCCCGTGATCTGGATGACTTGTTCAGTCGTTATGGAAGGTATGCAGAATCTAGCCGGATGTACCGTACCGTTCAGCCTTGGTCGAATTTGTGTGCTAACATTAATTTGTTGAATTCGATAAGTGTATGTGTGTTTAGCTATGCTGTATTTTACAGATGTAGATTCTAGCCGGATATACTGTTCATCCTTGGTTGAATTTGTGTGCTAACATTAATTTGTTGAATTCGAAAGGTGTATGTGTGTTTAGTTATTCTTCGCTTACTTCATTTGTCCCGGTTATGCTATTGCCAACATTATTATCAGACCTCTTGAGGCATTTACCAAGCCCTTTTTTTGGGTGCACGACTGTAAATGTGTATTTTGATATATCCGTGAAAGTGTGGATTGTTGATGGGTCTGTGTGGTTTAACTTGAGTGATCTTGTTGAAGGTTTTTTGGCTTATGCCAAACCTGGAGGTCTATGGTGAGAGGGTTCCCTTGGTGGATTTGGCGAGTCTTTCTATTATGTTATTGCCTGTTTTTATGGAAATGCCAAGAATCTCAGAGTGGTGTTTAG

mRNA sequence

ATGAACAATCGAACACTAAACGCACTAACTTTCTCACACCGGAATCAGCCGATCGGAAGTCGATTGAAGAAACCCGGGAACAAAAATTCGAGGAGATCAGAACGAAAAAAAAAAAGAAAAAAACTAAAACAGCACAATAACAAAACAAACTATTTCCTAATTGCAAAACGATTAGAAAGTGCGCCTCCTTCGAATTCTCTAGATAAAATGCCAAGGTACGACGATCGTTACGGTGGTACTCGGCTCTACGTTGGGCGCCTGTCTTCACGGACGAGGTCCCGTGATCTGGATGACTTGTTCAGTCGTTATGGAAGGTTTTTTGGCTTATGCCAAACCTGGAGGTCTATGGTGAGAGGGTTCCCTTGGTGGATTTGGCGAGTCTTTCTATTATGTTATTGCCTGTTTTTATGGAAATGCCAAGAATCTCAGAGTGGTGTTTAG

Coding sequence (CDS)

ATGAACAATCGAACACTAAACGCACTAACTTTCTCACACCGGAATCAGCCGATCGGAAGTCGATTGAAGAAACCCGGGAACAAAAATTCGAGGAGATCAGAACGAAAAAAAAAAAGAAAAAAACTAAAACAGCACAATAACAAAACAAACTATTTCCTAATTGCAAAACGATTAGAAAGTGCGCCTCCTTCGAATTCTCTAGATAAAATGCCAAGGTACGACGATCGTTACGGTGGTACTCGGCTCTACGTTGGGCGCCTGTCTTCACGGACGAGGTCCCGTGATCTGGATGACTTGTTCAGTCGTTATGGAAGGTTTTTTGGCTTATGCCAAACCTGGAGGTCTATGGTGAGAGGGTTCCCTTGGTGGATTTGGCGAGTCTTTCTATTATGTTATTGCCTGTTTTTATGGAAATGCCAAGAATCTCAGAGTGGTGTTTAG

Protein sequence

MNNRTLNALTFSHRNQPIGSRLKKPGNKNSRRSERKKKRKKLKQHNNKTNYFLIAKRLESAPPSNSLDKMPRYDDRYGGTRLYVGRLSSRTRSRDLDDLFSRYGRFFGLCQTWRSMVRGFPWWIWRVFLLCYCLFLWKCQESQSGV

Homology

[Close]

BLAST of CmoCh04G012970 vs. ExPASy Swiss-Prot
Match: Q9FYB7 (Serine/arginine-rich splicing factor RS2Z32 OS=Arabidopsis thaliana OX=3702 GN=RS2Z32 PE=1 SV=1)

HSP 1 Score: 70.5 bits (171), Expect = 1.8e-11
Identity = 32/36 (88.89%), Postives = 34/36 (94.44%), Query Frame = 0


Query: 70  MPRYDDRYGGTRLYVGRLSSRTRSRDLDDLFSRYGR 106
           MPRYDDRYG TRLYVGRLSSRTR+RDL+ LFSRYGR
Sbjct: 1   MPRYDDRYGNTRLYVGRLSSRTRTRDLERLFSRYGR 36

[Close]

BLAST of CmoCh04G012970 vs. ExPASy Swiss-Prot
Match: Q8VYA5 (Serine/arginine-rich splicing factor RS2Z33 OS=Arabidopsis thaliana OX=3702 GN=RS2Z33 PE=1 SV=1)

HSP 1 Score: 70.5 bits (171), Expect = 1.8e-11
Identity = 32/36 (88.89%), Postives = 34/36 (94.44%), Query Frame = 0


Query: 70  MPRYDDRYGGTRLYVGRLSSRTRSRDLDDLFSRYGR 106
           MPRYDDRYG TRLYVGRLSSRTR+RDL+ LFSRYGR
Sbjct: 1   MPRYDDRYGNTRLYVGRLSSRTRTRDLERLFSRYGR 36

[Close]

BLAST of CmoCh04G012970 vs. ExPASy TrEMBL
Match: A0A7J6GY79 (Uncharacterized protein OS=Cannabis sativa OX=3483 GN=F8388_027092 PE=4 SV=1)

HSP 1 Score: 119.0 bits (297), Expect = 1.6e-23
Identity = 52/60 (86.67%), Postives = 54/60 (90.00%), Query Frame = 0


Query: 70  MPRYDDRYGGTRLYVGRLSSRTRSRDLDDLFSRYGRFFGLCQTWRSMVRGFPWWIWRVFL 129
           MPRYDDRYGGTRLYVGRL SR R RDL+DLFSRYGRFFG CQTWRS+VRG  WWIWRVFL
Sbjct: 1   MPRYDDRYGGTRLYVGRLPSRVRGRDLEDLFSRYGRFFGFCQTWRSVVRGSHWWIWRVFL 60

[Close]

BLAST of CmoCh04G012970 vs. ExPASy TrEMBL
Match: D7TQD0 (Uncharacterized protein OS=Vitis vinifera OX=29760 GN=VIT_08s0040g02850 PE=4 SV=1)

HSP 1 Score: 100.9 bits (250), Expect = 4.6e-18
Identity = 44/54 (81.48%), Postives = 47/54 (87.04%), Query Frame = 0


Query: 70  MPRYDDRYGGTRLYVGRLSSRTRSRDLDDLFSRYGRFFGLCQTWRSMVRGFPWW 124
           MPRYDDRYG TRLYVGRLSSRTR+RDL+ LFSRYGRF G C TWRSMV G+ WW
Sbjct: 1   MPRYDDRYGNTRLYVGRLSSRTRTRDLESLFSRYGRFLGFCLTWRSMVGGWNWW 54

[Close]

BLAST of CmoCh04G012970 vs. ExPASy TrEMBL
Match: M1HA94 (Arginine/serine-rich splicing factor RS2Z39 transcript V OS=Zea mays OX=4577 GN=RS2Z39 PE=2 SV=1)

HSP 1 Score: 93.6 bits (231), Expect = 7.4e-16
Identity = 42/56 (75.00%), Postives = 47/56 (83.93%), Query Frame = 0


Query: 70  MPRYDDRYGGTRLYVGRLSSRTRSRDLDDLFSRYGRFFGLCQTWRSMVRGFPWWIW 126
           MPRYDDRYGGTRLYVGRL++RTRSRDL+ LF RYGRFFG  +  RS+V G PWW W
Sbjct: 1   MPRYDDRYGGTRLYVGRLATRTRSRDLEHLFGRYGRFFGFYR--RSLVEGCPWWTW 54

[Close]

BLAST of CmoCh04G012970 vs. ExPASy TrEMBL
Match: A0A7G2EX24 ((thale cress) hypothetical protein OS=Arabidopsis thaliana OX=3702 GN=AT9943_LOCUS13524 PE=4 SV=1)

HSP 1 Score: 90.1 bits (222), Expect = 8.2e-15
Identity = 39/51 (76.47%), Postives = 45/51 (88.24%), Query Frame = 0


Query: 70  MPRYDDRYGGTRLYVGRLSSRTRSRDLDDLFSRYGRFFGLCQTWRSMVRGF 121
           MPRYDDRYG TRLYVGRLSSRTR+RDL+ LFSRYGRF G+C TWR ++ G+
Sbjct: 1   MPRYDDRYGNTRLYVGRLSSRTRTRDLERLFSRYGRFLGVCLTWRCLMNGW 51

[Close]

BLAST of CmoCh04G012970 vs. ExPASy TrEMBL
Match: A0A061ERP0 (RNA-binding family protein with retrovirus zinc finger-like domain, putative OS=Theobroma cacao OX=3641 GN=TCM_022039 PE=4 SV=1)

HSP 1 Score: 88.6 bits (218), Expect = 2.4e-14
Identity = 39/50 (78.00%), Postives = 43/50 (86.00%), Query Frame = 0


Query: 70  MPRYDDRYGGTRLYVGRLSSRTRSRDLDDLFSRYGRFFGLCQTWRSMVRG 120
           MPR+D RYG TRLYVGRLSSRTR+RDL+ +FSRYGRF G C TWR MVRG
Sbjct: 1   MPRFDGRYGTTRLYVGRLSSRTRARDLEHIFSRYGRFLGFCLTWRPMVRG 50

[Close]

BLAST of CmoCh04G012970 vs. NCBI nr
Match: KAF4372419.1 (hypothetical protein F8388_027092 [Cannabis sativa] >KAF4387805.1 hypothetical protein G4B88_004132 [Cannabis sativa] >KAF4399726.1 hypothetical protein G4B88_022809 [Cannabis sativa])

HSP 1 Score: 119.0 bits (297), Expect = 3.4e-23
Identity = 52/60 (86.67%), Postives = 54/60 (90.00%), Query Frame = 0


Query: 70  MPRYDDRYGGTRLYVGRLSSRTRSRDLDDLFSRYGRFFGLCQTWRSMVRGFPWWIWRVFL 129
           MPRYDDRYGGTRLYVGRL SR R RDL+DLFSRYGRFFG CQTWRS+VRG  WWIWRVFL
Sbjct: 1   MPRYDDRYGGTRLYVGRLPSRVRGRDLEDLFSRYGRFFGFCQTWRSVVRGSHWWIWRVFL 60

[Close]

BLAST of CmoCh04G012970 vs. NCBI nr
Match: KAG6669979.1 (hypothetical protein CIPAW_01G279300 [Carya illinoinensis])

HSP 1 Score: 104.0 bits (258), Expect = 1.1e-18
Identity = 47/50 (94.00%), Postives = 47/50 (94.00%), Query Frame = 0


Query: 70  MPRYDDRYGGTRLYVGRLSSRTRSRDLDDLFSRYGRFFGLCQTWRSMVRG 120
           MPRYDDRYGGTRLYVGRLSSRTRSRDLDDLFSRYGRF G C TWRSMVRG
Sbjct: 1   MPRYDDRYGGTRLYVGRLSSRTRSRDLDDLFSRYGRFLGFCLTWRSMVRG 50

[Close]

BLAST of CmoCh04G012970 vs. NCBI nr
Match: CBI32650.3 (unnamed protein product, partial [Vitis vinifera])

HSP 1 Score: 100.9 bits (250), Expect = 9.5e-18
Identity = 44/54 (81.48%), Postives = 47/54 (87.04%), Query Frame = 0


Query: 70  MPRYDDRYGGTRLYVGRLSSRTRSRDLDDLFSRYGRFFGLCQTWRSMVRGFPWW 124
           MPRYDDRYG TRLYVGRLSSRTR+RDL+ LFSRYGRF G C TWRSMV G+ WW
Sbjct: 1   MPRYDDRYGNTRLYVGRLSSRTRTRDLESLFSRYGRFLGFCLTWRSMVGGWNWW 54

[Close]

BLAST of CmoCh04G012970 vs. NCBI nr
Match: KAF3972588.1 (hypothetical protein CMV_003911 [Castanea mollissima])

HSP 1 Score: 93.6 bits (231), Expect = 1.5e-15
Identity = 41/46 (89.13%), Postives = 43/46 (93.48%), Query Frame = 0


Query: 69  KMPRYDDRYGGTRLYVGRLSSRTRSRDLDDLFSRYGRFFGLCQTWR 115
           KMPRYDDRYGG+RLYVGRLSSRTRSRDLDD+FSRYGRF G C TWR
Sbjct: 528 KMPRYDDRYGGSRLYVGRLSSRTRSRDLDDIFSRYGRFLGFCLTWR 573

[Close]

BLAST of CmoCh04G012970 vs. NCBI nr
Match: AGE46047.1 (arginine/serine-rich splicing factor RS2Z39 transcript V [Zea mays])

HSP 1 Score: 93.6 bits (231), Expect = 1.5e-15
Identity = 42/56 (75.00%), Postives = 47/56 (83.93%), Query Frame = 0


Query: 70  MPRYDDRYGGTRLYVGRLSSRTRSRDLDDLFSRYGRFFGLCQTWRSMVRGFPWWIW 126
           MPRYDDRYGGTRLYVGRL++RTRSRDL+ LF RYGRFFG  +  RS+V G PWW W
Sbjct: 1   MPRYDDRYGGTRLYVGRLATRTRSRDLEHLFGRYGRFFGFYR--RSLVEGCPWWTW 54

[Close]

BLAST of CmoCh04G012970 vs. TAIR 10
Match: AT2G37340.1 (arginine/serine-rich zinc knuckle-containing protein 33 )

HSP 1 Score: 70.5 bits (171), Expect = 1.3e-12
Identity = 32/36 (88.89%), Postives = 34/36 (94.44%), Query Frame = 0


Query: 70  MPRYDDRYGGTRLYVGRLSSRTRSRDLDDLFSRYGR 106
           MPRYDDRYG TRLYVGRLSSRTR+RDL+ LFSRYGR
Sbjct: 1   MPRYDDRYGNTRLYVGRLSSRTRTRDLERLFSRYGR 36

[Close]

BLAST of CmoCh04G012970 vs. TAIR 10
Match: AT3G53500.2 (RNA-binding (RRM/RBD/RNP motifs) family protein with retrovirus zinc finger-like domain )

HSP 1 Score: 70.5 bits (171), Expect = 1.3e-12
Identity = 32/36 (88.89%), Postives = 34/36 (94.44%), Query Frame = 0


Query: 70  MPRYDDRYGGTRLYVGRLSSRTRSRDLDDLFSRYGR 106
           MPRYDDRYG TRLYVGRLSSRTR+RDL+ LFSRYGR
Sbjct: 1   MPRYDDRYGNTRLYVGRLSSRTRTRDLERLFSRYGR 36

The following BLAST results are available for this feature:

BLAST of CmoCh04G012970 vs. ExPASy Swiss-Prot


Match Name	E-value	Identity	Description
Q9FYB7	1.8e-11	88.89	Serine/arginine-rich splicing factor RS2Z32 OS=Arabidopsis thaliana OX=3702 GN=R...	[more]
Q8VYA5	1.8e-11	88.89	Serine/arginine-rich splicing factor RS2Z33 OS=Arabidopsis thaliana OX=3702 GN=R...	[more]

BLAST of CmoCh04G012970 vs. ExPASy TrEMBL


Match Name	E-value	Identity	Description
A0A7J6GY79	1.6e-23	86.67	Uncharacterized protein OS=Cannabis sativa OX=3483 GN=F8388_027092 PE=4 SV=1	[more]
D7TQD0	4.6e-18	81.48	Uncharacterized protein OS=Vitis vinifera OX=29760 GN=VIT_08s0040g02850 PE=4 SV=...	[more]
M1HA94	7.4e-16	75.00	Arginine/serine-rich splicing factor RS2Z39 transcript V OS=Zea mays OX=4577 GN=...	[more]
A0A7G2EX24	8.2e-15	76.47	(thale cress) hypothetical protein OS=Arabidopsis thaliana OX=3702 GN=AT9943_LOC...	[more]
A0A061ERP0	2.4e-14	78.00	RNA-binding family protein with retrovirus zinc finger-like domain, putative OS=...	[more]

BLAST of CmoCh04G012970 vs. NCBI nr


Match Name	E-value	Identity	Description
KAF4372419.1	3.4e-23	86.67	hypothetical protein F8388_027092 [Cannabis sativa] >KAF4387805.1 hypothetical p...	[more]
KAG6669979.1	1.1e-18	94.00	hypothetical protein CIPAW_01G279300 [Carya illinoinensis]	[more]
CBI32650.3	9.5e-18	81.48	unnamed protein product, partial [Vitis vinifera]	[more]
KAF3972588.1	1.5e-15	89.13	hypothetical protein CMV_003911 [Castanea mollissima]	[more]
AGE46047.1	1.5e-15	75.00	arginine/serine-rich splicing factor RS2Z39 transcript V [Zea mays]	[more]

BLAST of CmoCh04G012970 vs. TAIR 10


Match Name	E-value	Identity	Description
AT2G37340.1	1.3e-12	88.89	arginine/serine-rich zinc knuckle-containing protein 33	[more]
AT3G53500.2	1.3e-12	88.89	RNA-binding (RRM/RBD/RNP motifs) family protein with retrovirus zinc finger-like...	[more]

InterPro

Analysis Name: InterPro Annotations of Cucurbita moschata (Rifu) v1
Date Performed: 2021-10-25


IPR Term	IPR Description	Source	Source Term	Source Description	Alignment
IPR012677	Nucleotide-binding alpha-beta plait domain superfamily	GENE3D	3.30.70.330		coord: 14..109 e-value: 4.1E-6 score: 28.7
None	No IPR available	MOBIDB_LITE	mobidb-lite	disorder_prediction	coord: 25..46
None	No IPR available	MOBIDB_LITE	mobidb-lite	disorder_prediction	coord: 1..47
None	No IPR available	MOBIDB_LITE	mobidb-lite	disorder_prediction	coord: 1..17
IPR035979	RNA-binding domain superfamily	SUPERFAMILY	54928	RNA-binding domain, RBD	coord: 70..107

Relationships

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


Feature Name	Unique Name	Type
CmoCh04G012970.1	CmoCh04G012970.1	mRNA

GO Annotation

GO Assignments

This gene is annotated with the following GO terms.

Category	Term Accession	Term Name
biological_process	GO:0000398	mRNA splicing, via spliceosome
biological_process	GO:0055085	transmembrane transport
cellular_component	GO:0016021	integral component of membrane
cellular_component	GO:0016607	nuclear speck
molecular_function	GO:0140359	ABC-type transporter activity
molecular_function	GO:0005524	ATP binding
molecular_function	GO:0003729	mRNA binding
molecular_function	GO:0008270	zinc ion binding
molecular_function	GO:0003676	nucleic acid binding