Lcy11g014860 (gene) Sponge gourd (P93075) v1

Overview


Name	Lcy11g014860
Type	gene
Organism	Luffa cylindrica cv. P93075 (Sponge gourd (P93075) v1)
Description	serine/arginine-rich splicing factor RS40-like isoform X1
Location	Chr11: 31688694 .. 31689538 (+)
RNA-Seq Expression	Lcy11g014860
Synteny	Lcy11g014860

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.

ATGAAGCCGATTTTTTGTGGAAACTTCGAGTATGATGCTCGACAGCCTGATCTGGAAAGACTTTTTGGTCGATATGGAAAAGTTGATAGAGTAGATATGAAATCTGGTGAGCTTCTAGCCATAGTATATCTGTTTGTGTTTTGATTCATTCTTTGATAAAAAACTTATAACGTTTATATATACTAGAAAGTTAGAAACAAAAAAGCACATTTGTGTTTTGATTCCTGAATTCGTTTTAAAGTAGTGTATAAATTGTATCATGTCAATATGTACTAATTGCAGAAAAAAAGAGGGAAAAAAATTGTATCATGTCGATACTAGGCACTTGCAATTTACAAAGTTGCTGATAATCTTTAATATATACAAAATATCGAACTGAAAAAGTTACTATCCAATAAGAAATTGTTGGATTCAACGATGGCAAGGCAATTCAGCTGTTGGAAATTCCCCCGAAGTAGAAATCGTTCTCGCTGCATTTGGTGCTTTGCAATACAAATGGGCATCATCCAGCATACAGAAATCCAAGAGGGCAACATTTGTTGAGTTTTTGGTGGGGGATTCTTAAAAAAATTGAGAAAAGAAGAGCGTATTTTTTAAATCCTAAACCTCCTTGGCCAGAATTTTCTTTGGTGCAGGATTTTCTTCGCATATTCATAATCTTCTTGGATAAGGATGGATCTTCAGAATTGAGTTTTCCGCCTGTGACAAGCTTCCTCTTCTTGTTTCCAAGAAGAATCATACTGATCCTCAATGGCACTACCATCTTACATTTTCCTCAGACACTTTGCTTTCCATTCCTCATGACTTTTGCCTGCCTACAATTTCAGACATTGTTTCAAGGTTGA

mRNA sequence

ATGAAGCCGATTTTTTGTGGAAACTTCGAGTATGATGCTCGACAGCCTGATCTGGAAAGACTTTTTGGTCGATATGGAAAAGTTGATAGAGTAGATATGAAATCTGAATTTTCTTTGGTGCAGGATTTTCTTCGCATATTCATAATCTTCTTGGATAAGGATGGATCTTCAGAATTGAGTTTTCCGCCTGTGACAAGCTTCCTCTTCTTGTTTCCAAGAAGAATCATACTGATCCTCAATGGCACTACCATCTTACATTTTCCTCAGACACTTTGCTTTCCATTCCTCATGACTTTTGCCTGCCTACAATTTCAGACATTGTTTCAAGGTTGA

Coding sequence (CDS)

ATGAAGCCGATTTTTTGTGGAAACTTCGAGTATGATGCTCGACAGCCTGATCTGGAAAGACTTTTTGGTCGATATGGAAAAGTTGATAGAGTAGATATGAAATCTGAATTTTCTTTGGTGCAGGATTTTCTTCGCATATTCATAATCTTCTTGGATAAGGATGGATCTTCAGAATTGAGTTTTCCGCCTGTGACAAGCTTCCTCTTCTTGTTTCCAAGAAGAATCATACTGATCCTCAATGGCACTACCATCTTACATTTTCCTCAGACACTTTGCTTTCCATTCCTCATGACTTTTGCCTGCCTACAATTTCAGACATTGTTTCAAGGTTGA

Protein sequence

MKPIFCGNFEYDARQPDLERLFGRYGKVDRVDMKSEFSLVQDFLRIFIIFLDKDGSSELSFPPVTSFLFLFPRRIILILNGTTILHFPQTLCFPFLMTFACLQFQTLFQG

Homology

[Close]

BLAST of Lcy11g014860 vs. ExPASy Swiss-Prot
Match: P92966 (Serine/arginine-rich splicing factor RS41 OS=Arabidopsis thaliana OX=3702 GN=RS41 PE=1 SV=2)

HSP 1 Score: 72.0 bits (175), Expect = 4.7e-12
Identity = 30/40 (75.00%), Postives = 36/40 (90.00%), Query Frame = 0


Query: 1  MKPIFCGNFEYDARQPDLERLFGRYGKVDRVDMKSEFSLV 41
          MKP+FCGNFEYDAR+ DLERLF +YGKV+RVDMK+ F+ V
Sbjct: 1  MKPVFCGNFEYDARESDLERLFRKYGKVERVDMKAGFAFV 40

[Close]

BLAST of Lcy11g014860 vs. ExPASy Swiss-Prot
Match: P92965 (Serine/arginine-rich splicing factor RS40 OS=Arabidopsis thaliana OX=3702 GN=RS40 PE=1 SV=2)

HSP 1 Score: 71.6 bits (174), Expect = 6.1e-12
Identity = 30/40 (75.00%), Postives = 36/40 (90.00%), Query Frame = 0


Query: 1  MKPIFCGNFEYDARQPDLERLFGRYGKVDRVDMKSEFSLV 41
          MKP+FCGNFEYDAR+ DLERLF +YGKV+RVDMK+ F+ V
Sbjct: 1  MKPVFCGNFEYDAREGDLERLFRKYGKVERVDMKAGFAFV 40

[Close]

BLAST of Lcy11g014860 vs. ExPASy Swiss-Prot
Match: P92964 (Serine/arginine-rich splicing factor RS31 OS=Arabidopsis thaliana OX=3702 GN=RS31 PE=1 SV=2)

HSP 1 Score: 65.9 bits (159), Expect = 3.4e-10
Identity = 27/40 (67.50%), Postives = 34/40 (85.00%), Query Frame = 0


Query: 1  MKPIFCGNFEYDARQPDLERLFGRYGKVDRVDMKSEFSLV 41
          M+P+F GNFEY+ RQ DLERLF +YG+VDRVDMKS ++ V
Sbjct: 1  MRPVFVGNFEYETRQSDLERLFDKYGRVDRVDMKSGYAFV 40

[Close]

BLAST of Lcy11g014860 vs. ExPASy Swiss-Prot
Match: Q9ZPX8 (Serine/arginine-rich splicing factor RS31A OS=Arabidopsis thaliana OX=3702 GN=RS31A PE=1 SV=1)

HSP 1 Score: 55.8 bits (133), Expect = 3.5e-07
Identity = 22/40 (55.00%), Postives = 31/40 (77.50%), Query Frame = 0


Query: 1  MKPIFCGNFEYDARQPDLERLFGRYGKVDRVDMKSEFSLV 41
          M+ ++ GNF+YD R  DLERLF ++G+V RVDMKS ++ V
Sbjct: 1  MRHVYVGNFDYDTRHSDLERLFSKFGRVKRVDMKSGYAFV 40

[Close]

BLAST of Lcy11g014860 vs. ExPASy TrEMBL
Match: A0A5N5KPS9 (RRM domain-containing protein OS=Salix brachista OX=2182728 GN=DKX38_019074 PE=4 SV=1)

HSP 1 Score: 94.4 bits (233), Expect = 3.3e-16
Identity = 58/115 (50.43%), Postives = 72/115 (62.61%), Query Frame = 0


Query: 1   MKPIFCGNFEYDARQPDLERLFGRYGKVDRVDMKSEFSLVQDFL------RIFIIFLDKD 60
           M+ IFCGNFEYDARQ +LERLF RYG+V+RVDMK+   +V   L       I+  +L  D
Sbjct: 1   MRSIFCGNFEYDARQTELERLFKRYGRVERVDMKAGQEMVDIHLPEIVLGNIYSSWL-MD 60

Query: 61  GSSELSFPPVTSFLFLFPRRIILILNGTTILHFPQTLCFPFLMTFACLQFQTLFQ 110
           G SE    PVTS +FLF R++ LI NG T+  F +  C  FLMTFA      +FQ
Sbjct: 61  GCSEFCSFPVTS-IFLFSRKVTLIRNGRTMPIFLRHYCLSFLMTFAQPSIPDMFQ 113

[Close]

BLAST of Lcy11g014860 vs. ExPASy TrEMBL
Match: A0A6A4M343 (RRM domain-containing protein (Fragment) OS=Rhododendron williamsianum OX=262921 GN=C3L33_03178 PE=4 SV=1)

HSP 1 Score: 93.2 bits (230), Expect = 7.3e-16
Identity = 59/112 (52.68%), Postives = 65/112 (58.04%), Query Frame = 0


Query: 1   MKPIFCGNFEYDARQPDLERLFGRYGKVDRVDMKS-EFS-LVQDFLRIFIIFLDKDGSSE 60
           MK IFCGNF+Y+ARQ DLERLF +YGKVDRVDMKS +F  L+ DF        D+  SS 
Sbjct: 2   MKAIFCGNFDYEARQSDLERLFRKYGKVDRVDMKSGKFGLLLLDFGMSIHFLTDQWASSA 61

Query: 61  LSFPPVTSFLFLFPRRIILILNGTTILHFPQTLCFPFLMTFACLQFQTLFQG 111
             F  VTSFLFLFPRR  L     TIL      C   LM  A   F   F G
Sbjct: 62  FHFLAVTSFLFLFPRRATLTSQSHTILRHQ---CISCLMNLAQPSFSDTFPG 110

[Close]

BLAST of Lcy11g014860 vs. ExPASy TrEMBL
Match: A0A6N2KDK8 (RRM domain-containing protein OS=Salix viminalis OX=40686 GN=SVIM_LOCUS62909 PE=4 SV=1)

HSP 1 Score: 84.3 bits (207), Expect = 3.4e-13
Identity = 58/137 (42.34%), Postives = 71/137 (51.82%), Query Frame = 0


Query: 1   MKPIFCGNFEYDARQPDLERLFGRYGKVDRVDMKSEFS---------------------- 60
           M+ IFCGNFEYDARQ +LERLF RYG+V+RVDMK+  S                      
Sbjct: 1   MRSIFCGNFEYDARQTELERLFKRYGRVERVDMKAATSRASGPDSHAYEWPFPFIPVVQQ 60

Query: 61  LVQDFLRIFIIFLD------KDGSSELSFPPVTSFLFLFPRRIILILNGTTILHFPQTLC 110
           L  D  +  I+  +       DG SE    PVTS L LF R++ LI NG T+  F +  C
Sbjct: 61  LDWDIQQTMIVLGNIYSSWLMDGCSEFCSFPVTSIL-LFSRKVTLIRNGRTMPIFLRHYC 120

[Close]

BLAST of Lcy11g014860 vs. ExPASy TrEMBL
Match: A0A6J1E078 (serine/arginine-rich splicing factor RS40-like isoform X1 OS=Momordica charantia OX=3673 GN=LOC111025956 PE=4 SV=1)

HSP 1 Score: 83.2 bits (204), Expect = 7.5e-13
Identity = 36/40 (90.00%), Postives = 38/40 (95.00%), Query Frame = 0


Query: 1  MKPIFCGNFEYDARQPDLERLFGRYGKVDRVDMKSEFSLV 41
          MKPIFCGNFEYDARQPDLERLFGRYGKVDRVDMKS F+ +
Sbjct: 1  MKPIFCGNFEYDARQPDLERLFGRYGKVDRVDMKSGFAFI 40

[Close]

BLAST of Lcy11g014860 vs. ExPASy TrEMBL
Match: A0A1S4DXA1 (serine/arginine-rich splicing factor RS40-like isoform X1 OS=Cucumis melo OX=3656 GN=LOC103491067 PE=4 SV=1)

HSP 1 Score: 80.9 bits (198), Expect = 3.7e-12
Identity = 35/40 (87.50%), Postives = 37/40 (92.50%), Query Frame = 0


Query: 1  MKPIFCGNFEYDARQPDLERLFGRYGKVDRVDMKSEFSLV 41
          MKPIFCGNFEYDARQPDLERLF RYGKVDRVDMKS F+ +
Sbjct: 1  MKPIFCGNFEYDARQPDLERLFSRYGKVDRVDMKSGFAFI 40

[Close]

BLAST of Lcy11g014860 vs. NCBI nr
Match: KAB5532404.1 (hypothetical protein DKX38_019074 [Salix brachista])

HSP 1 Score: 94.4 bits (233), Expect = 6.7e-16
Identity = 58/115 (50.43%), Postives = 72/115 (62.61%), Query Frame = 0


Query: 1   MKPIFCGNFEYDARQPDLERLFGRYGKVDRVDMKSEFSLVQDFL------RIFIIFLDKD 60
           M+ IFCGNFEYDARQ +LERLF RYG+V+RVDMK+   +V   L       I+  +L  D
Sbjct: 1   MRSIFCGNFEYDARQTELERLFKRYGRVERVDMKAGQEMVDIHLPEIVLGNIYSSWL-MD 60

Query: 61  GSSELSFPPVTSFLFLFPRRIILILNGTTILHFPQTLCFPFLMTFACLQFQTLFQ 110
           G SE    PVTS +FLF R++ LI NG T+  F +  C  FLMTFA      +FQ
Sbjct: 61  GCSEFCSFPVTS-IFLFSRKVTLIRNGRTMPIFLRHYCLSFLMTFAQPSIPDMFQ 113

[Close]

BLAST of Lcy11g014860 vs. NCBI nr
Match: KAE9464925.1 (hypothetical protein C3L33_03178, partial [Rhododendron williamsianum])

HSP 1 Score: 93.2 bits (230), Expect = 1.5e-15
Identity = 59/112 (52.68%), Postives = 65/112 (58.04%), Query Frame = 0


Query: 1   MKPIFCGNFEYDARQPDLERLFGRYGKVDRVDMKS-EFS-LVQDFLRIFIIFLDKDGSSE 60
           MK IFCGNF+Y+ARQ DLERLF +YGKVDRVDMKS +F  L+ DF        D+  SS 
Sbjct: 2   MKAIFCGNFDYEARQSDLERLFRKYGKVDRVDMKSGKFGLLLLDFGMSIHFLTDQWASSA 61

Query: 61  LSFPPVTSFLFLFPRRIILILNGTTILHFPQTLCFPFLMTFACLQFQTLFQG 111
             F  VTSFLFLFPRR  L     TIL      C   LM  A   F   F G
Sbjct: 62  FHFLAVTSFLFLFPRRATLTSQSHTILRHQ---CISCLMNLAQPSFSDTFPG 110

[Close]

BLAST of Lcy11g014860 vs. NCBI nr
Match: XP_022159582.1 (serine/arginine-rich splicing factor RS40-like isoform X1 [Momordica charantia])

HSP 1 Score: 83.2 bits (204), Expect = 1.6e-12
Identity = 36/40 (90.00%), Postives = 38/40 (95.00%), Query Frame = 0


Query: 1  MKPIFCGNFEYDARQPDLERLFGRYGKVDRVDMKSEFSLV 41
          MKPIFCGNFEYDARQPDLERLFGRYGKVDRVDMKS F+ +
Sbjct: 1  MKPIFCGNFEYDARQPDLERLFGRYGKVDRVDMKSGFAFI 40

[Close]

BLAST of Lcy11g014860 vs. NCBI nr
Match: XP_022965059.1 (serine/arginine-rich splicing factor RS40-like isoform X1 [Cucurbita maxima])

HSP 1 Score: 80.9 bits (198), Expect = 7.7e-12
Identity = 35/40 (87.50%), Postives = 37/40 (92.50%), Query Frame = 0


Query: 1  MKPIFCGNFEYDARQPDLERLFGRYGKVDRVDMKSEFSLV 41
          MKPIFCGNFEYDARQPDLERLF RYGKVDRVDMKS F+ +
Sbjct: 1  MKPIFCGNFEYDARQPDLERLFSRYGKVDRVDMKSGFAFI 40

[Close]

BLAST of Lcy11g014860 vs. NCBI nr
Match: XP_023553356.1 (serine/arginine-rich splicing factor RS40-like isoform X1 [Cucurbita pepo subsp. pepo])

HSP 1 Score: 80.9 bits (198), Expect = 7.7e-12
Identity = 35/40 (87.50%), Postives = 37/40 (92.50%), Query Frame = 0


Query: 1  MKPIFCGNFEYDARQPDLERLFGRYGKVDRVDMKSEFSLV 41
          MKPIFCGNFEYDARQPDLERLF RYGKVDRVDMKS F+ +
Sbjct: 1  MKPIFCGNFEYDARQPDLERLFSRYGKVDRVDMKSGFAFI 40

[Close]

BLAST of Lcy11g014860 vs. TAIR 10
Match: AT5G52040.1 (RNA-binding (RRM/RBD/RNP motifs) family protein )

HSP 1 Score: 72.0 bits (175), Expect = 3.3e-13
Identity = 30/40 (75.00%), Postives = 36/40 (90.00%), Query Frame = 0


Query: 1  MKPIFCGNFEYDARQPDLERLFGRYGKVDRVDMKSEFSLV 41
          MKP+FCGNFEYDAR+ DLERLF +YGKV+RVDMK+ F+ V
Sbjct: 1  MKPVFCGNFEYDARESDLERLFRKYGKVERVDMKAGFAFV 40

[Close]

BLAST of Lcy11g014860 vs. TAIR 10
Match: AT5G52040.2 (RNA-binding (RRM/RBD/RNP motifs) family protein )

HSP 1 Score: 72.0 bits (175), Expect = 3.3e-13
Identity = 30/40 (75.00%), Postives = 36/40 (90.00%), Query Frame = 0


Query: 1  MKPIFCGNFEYDARQPDLERLFGRYGKVDRVDMKSEFSLV 41
          MKP+FCGNFEYDAR+ DLERLF +YGKV+RVDMK+ F+ V
Sbjct: 1  MKPVFCGNFEYDARESDLERLFRKYGKVERVDMKAGFAFV 40

[Close]

BLAST of Lcy11g014860 vs. TAIR 10
Match: AT4G25500.1 (arginine/serine-rich splicing factor 35 )

HSP 1 Score: 71.6 bits (174), Expect = 4.4e-13
Identity = 30/40 (75.00%), Postives = 36/40 (90.00%), Query Frame = 0


Query: 1  MKPIFCGNFEYDARQPDLERLFGRYGKVDRVDMKSEFSLV 41
          MKP+FCGNFEYDAR+ DLERLF +YGKV+RVDMK+ F+ V
Sbjct: 1  MKPVFCGNFEYDAREGDLERLFRKYGKVERVDMKAGFAFV 40

[Close]

BLAST of Lcy11g014860 vs. TAIR 10
Match: AT4G25500.4 (arginine/serine-rich splicing factor 35 )

HSP 1 Score: 71.6 bits (174), Expect = 4.4e-13
Identity = 30/40 (75.00%), Postives = 36/40 (90.00%), Query Frame = 0


Query: 1  MKPIFCGNFEYDARQPDLERLFGRYGKVDRVDMKSEFSLV 41
          MKP+FCGNFEYDAR+ DLERLF +YGKV+RVDMK+ F+ V
Sbjct: 1  MKPVFCGNFEYDAREGDLERLFRKYGKVERVDMKAGFAFV 40

[Close]

BLAST of Lcy11g014860 vs. TAIR 10
Match: AT3G61860.1 (RNA-binding (RRM/RBD/RNP motifs) family protein )

HSP 1 Score: 65.9 bits (159), Expect = 2.4e-11
Identity = 27/40 (67.50%), Postives = 34/40 (85.00%), Query Frame = 0


Query: 1  MKPIFCGNFEYDARQPDLERLFGRYGKVDRVDMKSEFSLV 41
          M+P+F GNFEY+ RQ DLERLF +YG+VDRVDMKS ++ V
Sbjct: 1  MRPVFVGNFEYETRQSDLERLFDKYGRVDRVDMKSGYAFV 40

The following BLAST results are available for this feature:

BLAST of Lcy11g014860 vs. ExPASy Swiss-Prot


Match Name	E-value	Identity	Description
P92966	4.7e-12	75.00	Serine/arginine-rich splicing factor RS41 OS=Arabidopsis thaliana OX=3702 GN=RS4...	[more]
P92965	6.1e-12	75.00	Serine/arginine-rich splicing factor RS40 OS=Arabidopsis thaliana OX=3702 GN=RS4...	[more]
P92964	3.4e-10	67.50	Serine/arginine-rich splicing factor RS31 OS=Arabidopsis thaliana OX=3702 GN=RS3...	[more]
Q9ZPX8	3.5e-07	55.00	Serine/arginine-rich splicing factor RS31A OS=Arabidopsis thaliana OX=3702 GN=RS...	[more]

BLAST of Lcy11g014860 vs. ExPASy TrEMBL


Match Name	E-value	Identity	Description
A0A5N5KPS9	3.3e-16	50.43	RRM domain-containing protein OS=Salix brachista OX=2182728 GN=DKX38_019074 PE=4...	[more]
A0A6A4M343	7.3e-16	52.68	RRM domain-containing protein (Fragment) OS=Rhododendron williamsianum OX=262921...	[more]
A0A6N2KDK8	3.4e-13	42.34	RRM domain-containing protein OS=Salix viminalis OX=40686 GN=SVIM_LOCUS62909 PE=...	[more]
A0A6J1E078	7.5e-13	90.00	serine/arginine-rich splicing factor RS40-like isoform X1 OS=Momordica charantia...	[more]
A0A1S4DXA1	3.7e-12	87.50	serine/arginine-rich splicing factor RS40-like isoform X1 OS=Cucumis melo OX=365...	[more]

BLAST of Lcy11g014860 vs. NCBI nr


Match Name	E-value	Identity	Description
KAB5532404.1	6.7e-16	50.43	hypothetical protein DKX38_019074 [Salix brachista]	[more]
KAE9464925.1	1.5e-15	52.68	hypothetical protein C3L33_03178, partial [Rhododendron williamsianum]	[more]
XP_022159582.1	1.6e-12	90.00	serine/arginine-rich splicing factor RS40-like isoform X1 [Momordica charantia]	[more]
XP_022965059.1	7.7e-12	87.50	serine/arginine-rich splicing factor RS40-like isoform X1 [Cucurbita maxima]	[more]
XP_023553356.1	7.7e-12	87.50	serine/arginine-rich splicing factor RS40-like isoform X1 [Cucurbita pepo subsp....	[more]

BLAST of Lcy11g014860 vs. TAIR 10


Match Name	E-value	Identity	Description
AT5G52040.1	3.3e-13	75.00	RNA-binding (RRM/RBD/RNP motifs) family protein	[more]
AT5G52040.2	3.3e-13	75.00	RNA-binding (RRM/RBD/RNP motifs) family protein	[more]
AT4G25500.1	4.4e-13	75.00	arginine/serine-rich splicing factor 35	[more]
AT4G25500.4	4.4e-13	75.00	arginine/serine-rich splicing factor 35	[more]
AT3G61860.1	2.4e-11	67.50	RNA-binding (RRM/RBD/RNP motifs) family protein	[more]

InterPro

Analysis Name: InterPro Annotations of Sponge gourd (P93075) v1
Date Performed: 2021-12-06


IPR Term	IPR Description	Source	Source Term	Source Description	Alignment
IPR000504	RNA recognition motif domain	PFAM	PF00076	RRM_1	coord: 4..36 e-value: 5.7E-5 score: 22.9
IPR012677	Nucleotide-binding alpha-beta plait domain superfamily	GENE3D	3.30.70.330		coord: 3..106 e-value: 9.6E-6 score: 27.8
IPR035979	RNA-binding domain superfamily	SUPERFAMILY	54928	RNA-binding domain, RBD	coord: 4..36

Relationships

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


Feature Name	Unique Name	Type
Lcy11g014860.1	Lcy11g014860.1	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
cellular_component	GO:0016607	nuclear speck
molecular_function	GO:0003723	RNA binding
molecular_function	GO:0003676	nucleic acid binding