Carg22734 (gene) Silver-seed gourd | Cucurbit Genomics Database (CuGenDB)

Overview


Name	Carg22734
Type	gene
Organism	Cucurbita argyrosperma (Silver-seed gourd)
Description	pre-mRNA-splicing factor SPF27 homolog
Location	Cucurbita_argyrosperma_scaffold_224 : 3727 .. 4568 (+)

Genome Viewer

Gene Expression

Sequences

The following sequences are available for this feature:

Gene sequence (with intron)

Legend: polypeptideexonCDSthree_prime_UTR

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

ATGTACATGTCATTTCTTAATGTAGTTAGCAAGAAACTACATCTGACCAACTTGACCATATATGATTGTTACTTATATTGTCTTGTTACTGTCAGATTGCAACAATTAGCTCAAGAACAGAATGAGAAGATGGAAAAAGTAAACCGCGAAAGAAAATTCCATCAAGTGAGTAACATCCCTGTAATTCATATTATTAGTATAAGCTAGAGGTCAATTCTTTGGAATTGTTGGTTGATTTTTTATGCAATGGTCAGCAAAACGCTGCATCTGAGCTTCATGTTTTGTCCACACAATGGAAGGAACTTTGCCAGAAAAATATTGAAATCCGAGTTGTATCCTCTCAAATAGAGGATCAAATCCAGGATCGAAGGAGAGAGGCTGAAAAAAAGTAATCTTGCATTTTTCTATTTGACACTTTTACACACATGTTTGGAATATTTAGAACCGATCTGCGGGTGGGTTATGATTTCAGGTACATGATTTCAGATATGTACAGCAAGAGAAAATACAAAGAATACCAACCGTACATTTTTAAAGCTCTGCCTAATGAGTTATATATATGGTTCAATTTACTATATATAATTTTAACGTATAGTATATAACTATTTAAATAGTGAATGGGAGCATCCTAACTATGGTTTATGCTGCTCAAAACTAGAGACTGCGGACATCTTTTGTTACTCTTAGCATATGCCGATATGGAAGATGAGTTCGGTTTATGGGAGAAGATTCAGTTGCTTTTGCTAACCACGTTATTGGGTAACTCTCTGATTTTTATTTACATAATGTTTTGTGTATAAATTATTGAACTACCAAACTGTCAATCAAATGGATAATATTTG

mRNA sequence

ATGTACATGTCATTTCTTAATGTAGTTAGCAAGAAACTACATCTGACCAACTTGACCATATATGATTGTTACTTATATTGTCTTGTTACTGTCAGATTGCAACAATTAGCTCAAGAACAGAATGAGAAGATGGAAAAAGTAAACCGCGAAAGAAAATTCCATCAACAAAACGCTGCATCTGAGCTTCATGTTTTGTCCACACAATGGAAGGAACTTTGCCAGAAAAATATTGAAATCCGAGTTGTATCCTCTCAAATAGAGGATCAAATCCAGGATCGAAGGAGAGAGGCTGAAAAAAAGTAATCTTGCATTTTTCTATTTGACACTTTTACACACATGTTTGGAATATTTAGAACCGATCTGCGGGTGGGTTATGATTTCAGGTACATGATTTCAGATATGTACAGCAAGAGAAAATACAAAGAATACCAACCGTACATTTTTAAAGCTCTGCCTAATGAGTTATATATATGGTTCAATTTACTATATATAATTTTAACGTATAGTATATAACTATTTAAATAGTGAATGGGAGCATCCTAACTATGGTTTATGCTGCTCAAAACTAGAGACTGCGGACATCTTTTGTTACTCTTAGCATATGCCGATATGGAAGATGAGTTCGGTTTATGGGAGAAGATTCAGTTGCTTTTGCTAACCACGTTATTGGGTAACTCTCTGATTTTTATTTACATAATGTTTTGTGTATAAATTATTGAACTACCAAACTGTCAATCAAATGGATAATATTTG

Coding sequence (CDS)

ATGTACATGTCATTTCTTAATGTAGTTAGCAAGAAACTACATCTGACCAACTTGACCATATATGATTGTTACTTATATTGTCTTGTTACTGTCAGATTGCAACAATTAGCTCAAGAACAGAATGAGAAGATGGAAAAAGTAAACCGCGAAAGAAAATTCCATCAACAAAACGCTGCATCTGAGCTTCATGTTTTGTCCACACAATGGAAGGAACTTTGCCAGAAAAATATTGAAATCCGAGTTGTATCCTCTCAAATAGAGGATCAAATCCAGGATCGAAGGAGAGAGGCTGAAAAAAAGTAA

Protein sequence

MYMSFLNVVSKKLHLTNLTIYDCYLYCLVTVRLQQLAQEQNEKMEKVNRERKFHQQNAASELHVLSTQWKELCQKNIEIRVVSSQIEDQIQDRRREAEKK

Homology

[Close]

BLAST of Carg22734 vs. NCBI nr
Match: XP_022923949.1 (pre-mRNA-splicing factor SPF27 homolog [Cucurbita moschata] >XP_022923950.1 pre-mRNA-splicing factor SPF27 homolog [Cucurbita moschata])

HSP 1 Score: 101.3 bits (251), Expect = 2.0e-18
Identity = 53/69 (76.81%), Postives = 61/69 (88.41%), Query Frame = 0


Query: 32  RLQQLAQEQNEKMEKVNRERKFHQQNAASELHVLSTQWKELCQKNIEIRVVSSQIEDQIQ 91
           R+Q+LAQEQNEK+EKVNRERKFHQQNAA ELH LSTQWKELC+KN+EI+V  SQIE QIQ
Sbjct: 170 RMQKLAQEQNEKIEKVNRERKFHQQNAAYELHALSTQWKELCEKNMEIQVACSQIEGQIQ 229

Query: 92  DRRREAEKK 101
           + R EA +K
Sbjct: 230 ELRSEAAEK 238

[Close]

BLAST of Carg22734 vs. NCBI nr
Match: XP_023001174.1 (pre-mRNA-splicing factor SPF27 homolog [Cucurbita maxima] >XP_023001176.1 pre-mRNA-splicing factor SPF27 homolog [Cucurbita maxima] >XP_023001177.1 pre-mRNA-splicing factor SPF27 homolog [Cucurbita maxima])

HSP 1 Score: 101.3 bits (251), Expect = 2.0e-18
Identity = 53/69 (76.81%), Postives = 61/69 (88.41%), Query Frame = 0


Query: 32  RLQQLAQEQNEKMEKVNRERKFHQQNAASELHVLSTQWKELCQKNIEIRVVSSQIEDQIQ 91
           R+Q+LAQEQNEK+EKVNRERKFHQQNAA ELH LSTQWKELC+KN+EI+V  SQIE QIQ
Sbjct: 170 RMQKLAQEQNEKIEKVNRERKFHQQNAAYELHALSTQWKELCEKNMEIQVACSQIEGQIQ 229

Query: 92  DRRREAEKK 101
           + R EA +K
Sbjct: 230 ELRSEAAEK 238

[Close]

BLAST of Carg22734 vs. NCBI nr
Match: XP_023518986.1 (pre-mRNA-splicing factor SPF27 homolog [Cucurbita pepo subsp. pepo])

HSP 1 Score: 101.3 bits (251), Expect = 2.0e-18
Identity = 53/69 (76.81%), Postives = 61/69 (88.41%), Query Frame = 0


Query: 32  RLQQLAQEQNEKMEKVNRERKFHQQNAASELHVLSTQWKELCQKNIEIRVVSSQIEDQIQ 91
           R+Q+LAQEQNEK+EKVNRERKFHQQNAA ELH LSTQWKELC+KN+EI+V  SQIE QIQ
Sbjct: 170 RMQKLAQEQNEKIEKVNRERKFHQQNAAYELHALSTQWKELCEKNMEIQVACSQIEGQIQ 229

Query: 92  DRRREAEKK 101
           + R EA +K
Sbjct: 230 ELRSEAAEK 238

[Close]

BLAST of Carg22734 vs. NCBI nr
Match: XP_022137683.1 (pre-mRNA-splicing factor SPF27 homolog [Momordica charantia])

HSP 1 Score: 100.9 bits (250), Expect = 2.6e-18
Identity = 52/66 (78.79%), Postives = 59/66 (89.39%), Query Frame = 0


Query: 32  RLQQLAQEQNEKMEKVNRERKFHQQNAASELHVLSTQWKELCQKNIEIRVVSSQIEDQIQ 91
           R+Q+LAQEQNEK+EKVNRERKFHQQNAA ELH LSTQWK+LC KN+EI+V  SQIE QIQ
Sbjct: 170 RMQKLAQEQNEKIEKVNRERKFHQQNAAYELHALSTQWKDLCHKNMEIQVACSQIEGQIQ 229

Query: 92  DRRREA 98
           + RREA
Sbjct: 230 ELRREA 235

[Close]

BLAST of Carg22734 vs. NCBI nr
Match: XP_004137495.1 (PREDICTED: pre-mRNA-splicing factor SPF27 homolog [Cucumis sativus] >KGN64160.1 hypothetical protein Csa_1G042680 [Cucumis sativus])

HSP 1 Score: 100.5 bits (249), Expect = 3.4e-18
Identity = 52/69 (75.36%), Postives = 61/69 (88.41%), Query Frame = 0


Query: 32  RLQQLAQEQNEKMEKVNRERKFHQQNAASELHVLSTQWKELCQKNIEIRVVSSQIEDQIQ 91
           R+Q+LAQEQNEK+EKVNRERKFHQQNAA ELH LSTQWKELC+KN+EI+V   Q+E QIQ
Sbjct: 170 RMQKLAQEQNEKIEKVNRERKFHQQNAAYELHALSTQWKELCEKNMEIQVACFQLEGQIQ 229

Query: 92  DRRREAEKK 101
           + RREA +K
Sbjct: 230 ELRREAAEK 238

[Close]

BLAST of Carg22734 vs. TAIR10
Match: AT3G18165.1 (modifier of snc1,4)

HSP 1 Score: 73.2 bits (178), Expect = 1.0e-13
Identity = 36/69 (52.17%), Postives = 54/69 (78.26%), Query Frame = 0


Query: 32  RLQQLAQEQNEKMEKVNRERKFHQQNAASELHVLSTQWKELCQKNIEIRVVSSQIEDQIQ 91
           R+Q+LAQEQNE++EKVNRERK+HQQ  + EL+ LS +W++LC KN+EI+   + +E QI 
Sbjct: 168 RMQRLAQEQNEEIEKVNRERKYHQQTTSYELNALSQEWRQLCVKNMEIQSACAMLETQID 227

Query: 92  DRRREAEKK 101
             ++EA ++
Sbjct: 228 SFKKEAAER 236

[Close]

BLAST of Carg22734 vs. Swiss-Prot
Match: sp|Q949S9|SPF27_ARATH (Pre-mRNA-splicing factor SPF27 homolog OS=Arabidopsis thaliana OX=3702 GN=MOS4 PE=1 SV=1)

HSP 1 Score: 73.2 bits (178), Expect = 1.9e-12
Identity = 36/69 (52.17%), Postives = 54/69 (78.26%), Query Frame = 0


Query: 32  RLQQLAQEQNEKMEKVNRERKFHQQNAASELHVLSTQWKELCQKNIEIRVVSSQIEDQIQ 91
           R+Q+LAQEQNE++EKVNRERK+HQQ  + EL+ LS +W++LC KN+EI+   + +E QI 
Sbjct: 168 RMQRLAQEQNEEIEKVNRERKYHQQTTSYELNALSQEWRQLCVKNMEIQSACAMLETQID 227

Query: 92  DRRREAEKK 101
             ++EA ++
Sbjct: 228 SFKKEAAER 236

[Close]

BLAST of Carg22734 vs. TrEMBL
Match: tr|A0A1S3CHH7|A0A1S3CHH7_CUCME (pre-mRNA-splicing factor SPF27 homolog OS=Cucumis melo OX=3656 GN=LOC103500959 PE=4 SV=1)

HSP 1 Score: 100.5 bits (249), Expect = 2.2e-18
Identity = 52/69 (75.36%), Postives = 61/69 (88.41%), Query Frame = 0


Query: 32  RLQQLAQEQNEKMEKVNRERKFHQQNAASELHVLSTQWKELCQKNIEIRVVSSQIEDQIQ 91
           R+Q+LAQEQNEK+EKVNRERKFHQQNAA ELH LSTQWKELC+KN+EI+V   Q+E QIQ
Sbjct: 170 RMQKLAQEQNEKIEKVNRERKFHQQNAAYELHALSTQWKELCEKNMEIQVACFQLEGQIQ 229

Query: 92  DRRREAEKK 101
           + RREA +K
Sbjct: 230 ELRREAAEK 238

[Close]

BLAST of Carg22734 vs. TrEMBL
Match: tr|A0A0A0LQG2|A0A0A0LQG2_CUCSA (Uncharacterized protein OS=Cucumis sativus OX=3659 GN=Csa_1G042680 PE=4 SV=1)

HSP 1 Score: 100.5 bits (249), Expect = 2.2e-18
Identity = 52/69 (75.36%), Postives = 61/69 (88.41%), Query Frame = 0


Query: 32  RLQQLAQEQNEKMEKVNRERKFHQQNAASELHVLSTQWKELCQKNIEIRVVSSQIEDQIQ 91
           R+Q+LAQEQNEK+EKVNRERKFHQQNAA ELH LSTQWKELC+KN+EI+V   Q+E QIQ
Sbjct: 170 RMQKLAQEQNEKIEKVNRERKFHQQNAAYELHALSTQWKELCEKNMEIQVACFQLEGQIQ 229

Query: 92  DRRREAEKK 101
           + RREA +K
Sbjct: 230 ELRREAAEK 238

[Close]

BLAST of Carg22734 vs. TrEMBL
Match: tr|A0A2P2J8S6|A0A2P2J8S6_RHIMU (Uncharacterized protein OS=Rhizophora mucronata OX=61149 PE=4 SV=1)

HSP 1 Score: 88.6 bits (218), Expect = 8.7e-15
Identity = 46/69 (66.67%), Postives = 58/69 (84.06%), Query Frame = 0


Query: 32  RLQQLAQEQNEKMEKVNRERKFHQQNAASELHVLSTQWKELCQKNIEIRVVSSQIEDQIQ 91
           R+Q+LAQEQNEK+E VNRERK+HQQN A EL+ LSTQWKELCQKNIEI    ++IE QI+
Sbjct: 166 RVQKLAQEQNEKIEAVNRERKYHQQNTAYELNALSTQWKELCQKNIEIEAACAKIELQIE 225

Query: 92  DRRREAEKK 101
           + +REA ++
Sbjct: 226 ELKREAAER 234

[Close]

BLAST of Carg22734 vs. TrEMBL
Match: tr|A0A2P5RIM8|A0A2P5RIM8_GOSBA (Uncharacterized protein OS=Gossypium barbadense OX=3634 GN=GOBAR_DD16418 PE=4 SV=1)

HSP 1 Score: 87.8 bits (216), Expect = 1.5e-14
Identity = 51/83 (61.45%), Postives = 64/83 (77.11%), Query Frame = 0


Query: 18  LTIYDCYLYCLVTVRLQQLAQEQNEKMEKVNRERKFHQQNAASELHVLSTQWKELCQKNI 77
           LTI+  +L  L++ R+Q+LAQ+QNEK+E VNRERKFHQQN+A EL+ LSTQWKELC KNI
Sbjct: 53  LTIFFLFLPLLLS-RMQKLAQQQNEKIEIVNRERKFHQQNSAYELNALSTQWKELCLKNI 112

Query: 78  EIRVVSSQIEDQIQDRRREAEKK 101
           EI    S IE  I + RREA ++
Sbjct: 113 EIHAACSHIEKHIAELRREAAER 134

[Close]

BLAST of Carg22734 vs. TrEMBL
Match: tr|A0A1U8J0D9|A0A1U8J0D9_GOSHI (pre-mRNA-splicing factor SPF27 homolog isoform X2 OS=Gossypium hirsutum OX=3635 GN=LOC107902058 PE=4 SV=1)

HSP 1 Score: 86.7 bits (213), Expect = 3.3e-14
Identity = 46/69 (66.67%), Postives = 55/69 (79.71%), Query Frame = 0


Query: 32  RLQQLAQEQNEKMEKVNRERKFHQQNAASELHVLSTQWKELCQKNIEIRVVSSQIEDQIQ 91
           R+Q+LAQ+QNEK+E VNRERKFHQQN+A EL+ LSTQWKELC KNIEI    S IE  I 
Sbjct: 168 RMQKLAQQQNEKIETVNRERKFHQQNSAYELNALSTQWKELCLKNIEIHAACSHIEKHIA 227

Query: 92  DRRREAEKK 101
           + RREA ++
Sbjct: 228 ELRREAAER 236

The following BLAST results are available for this feature:

BLAST of Carg22734 vs. NCBI nr


Match Name	E-value	Identity	Description
XP_022923949.1	2.0e-18	76.81	pre-mRNA-splicing factor SPF27 homolog [Cucurbita moschata] >XP_022923950.1 pre-...	[more]
XP_023001174.1	2.0e-18	76.81	pre-mRNA-splicing factor SPF27 homolog [Cucurbita maxima] >XP_023001176.1 pre-mR...	[more]
XP_023518986.1	2.0e-18	76.81	pre-mRNA-splicing factor SPF27 homolog [Cucurbita pepo subsp. pepo]	[more]
XP_022137683.1	2.6e-18	78.79	pre-mRNA-splicing factor SPF27 homolog [Momordica charantia]	[more]
XP_004137495.1	3.4e-18	75.36	PREDICTED: pre-mRNA-splicing factor SPF27 homolog [Cucumis sativus] >KGN64160.1 ...	[more]

BLAST of Carg22734 vs. TAIR10


Match Name	E-value	Identity	Description
AT3G18165.1	1.0e-13	52.17	modifier of snc1,4	[more]

BLAST of Carg22734 vs. Swiss-Prot


Match Name	E-value	Identity	Description
sp\|Q949S9\|SPF27_ARATH	1.9e-12	52.17	Pre-mRNA-splicing factor SPF27 homolog OS=Arabidopsis thaliana OX=3702 GN=MOS4 P...	[more]

BLAST of Carg22734 vs. TrEMBL


Match Name	E-value	Identity	Description
tr\|A0A1S3CHH7\|A0A1S3CHH7_CUCME	2.2e-18	75.36	pre-mRNA-splicing factor SPF27 homolog OS=Cucumis melo OX=3656 GN=LOC103500959 P...	[more]
tr\|A0A0A0LQG2\|A0A0A0LQG2_CUCSA	2.2e-18	75.36	Uncharacterized protein OS=Cucumis sativus OX=3659 GN=Csa_1G042680 PE=4 SV=1	[more]
tr\|A0A2P2J8S6\|A0A2P2J8S6_RHIMU	8.7e-15	66.67	Uncharacterized protein OS=Rhizophora mucronata OX=61149 PE=4 SV=1	[more]
tr\|A0A2P5RIM8\|A0A2P5RIM8_GOSBA	1.5e-14	61.45	Uncharacterized protein OS=Gossypium barbadense OX=3634 GN=GOBAR_DD16418 PE=4 SV...	[more]
tr\|A0A1U8J0D9\|A0A1U8J0D9_GOSHI	3.3e-14	66.67	pre-mRNA-splicing factor SPF27 homolog isoform X2 OS=Gossypium hirsutum OX=3635 ...	[more]

Annotated Terms

The following terms have been associated with this gene:

Vocabulary: **Biological Process**
Term	Definition
GO:0006397	mRNA processing

Vocabulary: **INTERPRO**
Term	Definition
IPR008409	SPF27

GO Annotation

GO Assignments

This gene is annotated with the following GO terms.

Category	Term Accession	Term Name
biological_process	GO:0006397	mRNA processing
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
Carg22734-RA	Carg22734-RA	mRNA

InterPro

Analysis Name: InterPro Annotations of silver-seed gourd
Date Performed: 2019-03-07


IPR Term	IPR Description	Source	Source Term	Source Description	Alignment
None	No IPR available	COILS	Coil	Coil	coord: 30..57
IPR008409	Pre-mRNA-splicing factor SPF27	PFAM	PF05700	BCAS2	coord: 32..99 e-value: 8.4E-14 score: 51.6

Synteny

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


Gene	Orthologue	Organism	Block
Carg22734	Cla018468	Watermelon (97103) v1	carwmB0509
Carg22734	Csa1G042680	Cucumber (Chinese Long) v2	carcuB0542
Carg22734	MELO3C002120	Melon (DHL92) v3.5.1	carmeB0516
Carg22734	ClCG04G010780	Watermelon (Charleston Gray)	carwcgB0498
Carg22734	CSPI01G07080	Wild cucumber (PI 183967)	carcpiB0549
Carg22734	Cucsa.121810	Cucumber (Gy14) v1	carcgyB0589
Carg22734	CmaCh18G000590	Cucurbita maxima (Rimu)	carcmaB0722
Carg22734	CmaCh13G010010	Cucurbita maxima (Rimu)	carcmaB0721
Carg22734	CmoCh13G010370	Cucurbita moschata (Rifu)	carcmoB0698
Carg22734	CmoCh18G000460	Cucurbita moschata (Rifu)	carcmoB0699
Carg22734	Lsi02G002200	Bottle gourd (USVL1VR-Ls)	carlsiB467
Carg22734	Cp4.1LG09g11170	Cucurbita pepo (Zucchini)	carcpeB0722
Carg22734	CsGy1G006890	Cucumber (Gy14) v2	carcgybB0518
Carg22734	MELO3C002120.2	Melon (DHL92) v3.6.1	carmedB0522
Carg22734	CsaV3_1G007020	Cucumber (Chinese Long) v3	carcucB0548
Carg22734	Cla97C04G077600	Watermelon (97103) v2	carwmbB0536
Carg22734	Bhi08G001062	Wax gourd	carwgoB0623

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


Gene	Paralogue	Organism	Block
Carg22734	Carg04837	Silver-seed gourd	carcarB413

The following block(s) are covering this gene:

None