Lag0004401 (gene) Sponge gourd (AG‐4) v1

Overview


Name	Lag0004401
Type	gene
Organism	Luffa acutangula (Sponge gourd (AG‐4) v1)
Description	Sm protein F
Location	chr6: 3525118 .. 3526644 (+)
RNA-Seq Expression	Lag0004401
Synteny	Lag0004401

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.

ATGGTAAACAAGAATTTTCTTCGTCCTCACTTTTCGAGTCTGTATATAAGTGTTATTGTTGCTTTTTTACCACTTTTCCTCGCTTGAATGTGGACTGTATCAATGTATCTGTATGTGGAATTGGATATTAGGGGAAGTTTTCTATTGATTTCTTTGATTCTTCTGTTCTGGAGATTCTTGGTTGTCTGAGCTTTTTCCCTCATGTAATTGTTTGGGCATTGCAGAGCATCCCAGTTAACCCGAAACCGTTCTTGAACAATTTGACTGGAAAGACTGTGGTTGTGAAACTCAAGTGGGGGATGGAGTACAAAGGTTTTGCTTCTATCTGCTGCTTGTCTTTCTCATTACTTTCTTGCCTGCTGGAGCTTGTACTGAGTTTTCTTTACATTTCAGGCTTTCTTGTCTCGGTGGACTCGTACATGAACTTACAGGTGTGTTTCTACTTGCATTGGGATTACTTCAGTTCTTTCTTTCTAGTGTGGTCATCTCTTTGTTGTTTTTGAGTCTCCCTCTGCTGCAGGACTCTGTAGTTTGCAATTTAGTCTGCATAGTCTGTTTTGGCTGTTATGAATTTAGACACTATGAGAAGGGAACTTAGTGTAATCATCTTTTTACTTGAACCATTGTTCAAACAGTAGTGTAGTGACTGGGTCAAAGTCCTCCATCTCTGAATCTAACTTGAGGTGTTCAGTTTGTTTTAAAAGTTTCCTCTTCTATCATTTTCTGAAAATAAATTGTCTGTTTTTGTTTTCAAAATTGTTTGTAAGAAATGCGATATAATTATTTGCAGGTGGTCATATTTATTGTGCATATTGATATTGATTTCCATAGCTCAATGATTAAGCCATCTCTTTTTCTCTAAGAGGTCGTAAATTGTATTTAAATATTTTCACAAGGAAGAATAAGTTCATTTGTTTCAAAATTGATCATCCACGATGACAAATTTAAAGATATCAAGGAAAAACTTTTTTCTCTGAATTTTTGTTTTAGAAAGCAAGTTGCTGTGAAAATGTGTCCTAAATAAGCCCGTAGTCTCTTTCAGTGGCTGATTCTAGTATACAACTTTTTGAATGCAGCTTGCCAATACCGAGGAATATATTGATGGACAATTTACTGGGAGTCTCGGAGAAATATTGATCAGGTAACCTTCTTCCACTGATTGCAAATCGCAATATCAAATGCATCGATGCTTATTTGTTAGTAGTAATGCATATGCCCTGTTCATGATACATATAAATGCTCAAGCACAAATGTGAGGAAATGTAACACAGACACAGAAGCATGTTACATGCAATTTGTTTTACGAGGTCCCCTAAGGATATGTCATATTTTAGTAGTTTTCTGGTGCATTTTGTACATGGTCATGCCCTTTCATATTCGAAACCTTGGTGCTTAACAATAAATTCTTCCACATTTCTAACATTGCACATGACAATTTGCCTGCTTTTTGCTGTCAGGTGTAATAATGTTCTTTACCTTCGCGGAGTACCAGAGGATGAAGAAATCGAAGAAGCCGAGCGTGACTAG

mRNA sequence

ATGAGCATCCCAGTTAACCCGAAACCGTTCTTGAACAATTTGACTGGAAAGACTGTGGTTGTGAAACTCAAGTGGGGGATGGAGTACAAAGGCTTTCTTGTCTCGGTGGACTCGTACATGAACTTACAGCTTGCCAATACCGAGGAATATATTGATGGACAATTTACTGGGAGTCTCGGAGAAATATTGATCAGGTGTAATAATGTTCTTTACCTTCGCGGAGTACCAGAGGATGAAGAAATCGAAGAAGCCGAGCGTGACTAG

Coding sequence (CDS)

ATGAGCATCCCAGTTAACCCGAAACCGTTCTTGAACAATTTGACTGGAAAGACTGTGGTTGTGAAACTCAAGTGGGGGATGGAGTACAAAGGCTTTCTTGTCTCGGTGGACTCGTACATGAACTTACAGCTTGCCAATACCGAGGAATATATTGATGGACAATTTACTGGGAGTCTCGGAGAAATATTGATCAGGTGTAATAATGTTCTTTACCTTCGCGGAGTACCAGAGGATGAAGAAATCGAAGAAGCCGAGCGTGACTAG

Protein sequence

MSIPVNPKPFLNNLTGKTVVVKLKWGMEYKGFLVSVDSYMNLQLANTEEYIDGQFTGSLGEILIRCNNVLYLRGVPEDEEIEEAERD

Homology

[Close]

BLAST of Lag0004401 vs. NCBI nr
Match: XP_004146017.2 (probable small nuclear ribonucleoprotein F isoform X1 [Cucumis sativus] >XP_008463776.1 PREDICTED: probable small nuclear ribonucleoprotein F [Cucumis melo] >XP_008463777.1 PREDICTED: probable small nuclear ribonucleoprotein F [Cucumis melo] >XP_011654028.1 probable small nuclear ribonucleoprotein F isoform X1 [Cucumis sativus] >XP_038897243.1 probable small nuclear ribonucleoprotein F [Benincasa hispida] >TYK27869.1 putative small nuclear ribonucleoprotein F [Cucumis melo var. makuwa] >KAE8649817.1 hypothetical protein Csa_012166 [Cucumis sativus])

HSP 1 Score: 179.1 bits (453), Expect = 1.6e-41
Identity = 86/87 (98.85%), Postives = 87/87 (100.00%), Query Frame = 0


Query: 1  MSIPVNPKPFLNNLTGKTVVVKLKWGMEYKGFLVSVDSYMNLQLANTEEYIDGQFTGSLG 60
          MSIPVNPKPFLNNLTGKTVVVKLKWGMEYKGFLVSVDSYMNLQLANTEEYIDGQFTGSLG
Sbjct: 1  MSIPVNPKPFLNNLTGKTVVVKLKWGMEYKGFLVSVDSYMNLQLANTEEYIDGQFTGSLG 60

Query: 61 EILIRCNNVLYLRGVPEDEEIEEAERD 88
          EILIRCNNVLYLRGVPEDEEIE+AERD
Sbjct: 61 EILIRCNNVLYLRGVPEDEEIEDAERD 87

[Close]

BLAST of Lag0004401 vs. NCBI nr
Match: XP_022144158.1 (probable small nuclear ribonucleoprotein F [Momordica charantia])

HSP 1 Score: 176.0 bits (445), Expect = 1.4e-40
Identity = 84/87 (96.55%), Postives = 86/87 (98.85%), Query Frame = 0


Query: 1  MSIPVNPKPFLNNLTGKTVVVKLKWGMEYKGFLVSVDSYMNLQLANTEEYIDGQFTGSLG 60
          MSIPVNPKPFLNNLTGKTVVVKLKWGMEYKGFLVSVDSYMNLQLANTEEYIDGQFTGSLG
Sbjct: 1  MSIPVNPKPFLNNLTGKTVVVKLKWGMEYKGFLVSVDSYMNLQLANTEEYIDGQFTGSLG 60

Query: 61 EILIRCNNVLYLRGVPEDEEIEEAERD 88
          EILIRCNNVLYLRGVPEDEEIE+ ER+
Sbjct: 61 EILIRCNNVLYLRGVPEDEEIEDVERE 87

[Close]

BLAST of Lag0004401 vs. NCBI nr
Match: XP_022961705.1 (probable small nuclear ribonucleoprotein F [Cucurbita moschata] >XP_022996693.1 probable small nuclear ribonucleoprotein F [Cucurbita maxima] >XP_023002564.1 probable small nuclear ribonucleoprotein F [Cucurbita maxima] >XP_023546841.1 probable small nuclear ribonucleoprotein F [Cucurbita pepo subsp. pepo] >KAG7029399.1 putative small nuclear ribonucleoprotein F, partial [Cucurbita argyrosperma subsp. argyrosperma])

HSP 1 Score: 176.0 bits (445), Expect = 1.4e-40
Identity = 85/87 (97.70%), Postives = 86/87 (98.85%), Query Frame = 0


Query: 1  MSIPVNPKPFLNNLTGKTVVVKLKWGMEYKGFLVSVDSYMNLQLANTEEYIDGQFTGSLG 60
          MSIPVNPKPFLNNLTGKTVVVKLKWGMEYKGFLVSVDSYMNLQLANTEEYIDGQ TGSLG
Sbjct: 1  MSIPVNPKPFLNNLTGKTVVVKLKWGMEYKGFLVSVDSYMNLQLANTEEYIDGQCTGSLG 60

Query: 61 EILIRCNNVLYLRGVPEDEEIEEAERD 88
          EILIRCNNVLYLRGVPEDEEIE+AERD
Sbjct: 61 EILIRCNNVLYLRGVPEDEEIEDAERD 87

[Close]

BLAST of Lag0004401 vs. NCBI nr
Match: XP_022951684.1 (probable small nuclear ribonucleoprotein F [Cucurbita moschata] >XP_023538350.1 probable small nuclear ribonucleoprotein F [Cucurbita pepo subsp. pepo] >XP_023538351.1 probable small nuclear ribonucleoprotein F [Cucurbita pepo subsp. pepo] >KAG6585581.1 putative small nuclear ribonucleoprotein F, partial [Cucurbita argyrosperma subsp. sororia] >KAG7020496.1 putative small nuclear ribonucleoprotein F [Cucurbita argyrosperma subsp. argyrosperma])

HSP 1 Score: 175.3 bits (443), Expect = 2.4e-40
Identity = 84/87 (96.55%), Postives = 86/87 (98.85%), Query Frame = 0


Query: 1  MSIPVNPKPFLNNLTGKTVVVKLKWGMEYKGFLVSVDSYMNLQLANTEEYIDGQFTGSLG 60
          MSIPVNPKPFLNNLTGKTVVVKLKWGMEYKGFLVSVDSYMNLQLANTEEYIDGQ TGSLG
Sbjct: 1  MSIPVNPKPFLNNLTGKTVVVKLKWGMEYKGFLVSVDSYMNLQLANTEEYIDGQCTGSLG 60

Query: 61 EILIRCNNVLYLRGVPEDEEIEEAERD 88
          EILIRCNNVLYLRGVPEDEE+E+AERD
Sbjct: 61 EILIRCNNVLYLRGVPEDEELEDAERD 87

[Close]

BLAST of Lag0004401 vs. NCBI nr
Match: KAF3452786.1 (hypothetical protein FNV43_RR03219 [Rhamnella rubrinervis])

HSP 1 Score: 174.9 bits (442), Expect = 3.1e-40
Identity = 83/86 (96.51%), Postives = 86/86 (100.00%), Query Frame = 0


Query: 2  SIPVNPKPFLNNLTGKTVVVKLKWGMEYKGFLVSVDSYMNLQLANTEEYIDGQFTGSLGE 61
          +IPVNPKPFLNNLTGKTVVVKLKWGMEYKGFLVSVDSYMNLQLANTEEYIDGQFTG+LGE
Sbjct: 3  TIPVNPKPFLNNLTGKTVVVKLKWGMEYKGFLVSVDSYMNLQLANTEEYIDGQFTGNLGE 62

Query: 62 ILIRCNNVLYLRGVPEDEEIEEAERD 88
          ILIRCNNVLYLRGVPEDEEIE+AERD
Sbjct: 63 ILIRCNNVLYLRGVPEDEEIEDAERD 88

[Close]

BLAST of Lag0004401 vs. ExPASy Swiss-Prot
Match: Q9SUM2 (Probable small nuclear ribonucleoprotein F OS=Arabidopsis thaliana OX=3702 GN=At4g30220 PE=3 SV=1)

HSP 1 Score: 164.5 bits (415), Expect = 5.5e-40
Identity = 75/86 (87.21%), Postives = 83/86 (96.51%), Query Frame = 0


Query: 2  SIPVNPKPFLNNLTGKTVVVKLKWGMEYKGFLVSVDSYMNLQLANTEEYIDGQFTGSLGE 61
          +IPVNPKPFLNNLTGKTV+VKLKWGMEYKGFL SVDSYMNLQL NTEEYIDGQ TG+LGE
Sbjct: 3  TIPVNPKPFLNNLTGKTVIVKLKWGMEYKGFLASVDSYMNLQLGNTEEYIDGQLTGNLGE 62

Query: 62 ILIRCNNVLYLRGVPEDEEIEEAERD 88
          ILIRCNNVLY+RGVPEDEE+E+A++D
Sbjct: 63 ILIRCNNVLYVRGVPEDEELEDADQD 88

[Close]

BLAST of Lag0004401 vs. ExPASy Swiss-Prot
Match: Q3T0Z8 (Small nuclear ribonucleoprotein F OS=Bos taurus OX=9913 GN=SNRPF PE=3 SV=2)

HSP 1 Score: 142.9 bits (359), Expect = 1.7e-33
Identity = 64/80 (80.00%), Postives = 73/80 (91.25%), Query Frame = 0


Query: 1  MSIPVNPKPFLNNLTGKTVVVKLKWGMEYKGFLVSVDSYMNLQLANTEEYIDGQFTGSLG 60
          MS+P+NPKPFLN LTGK V+VKLKWGMEYKG+LVSVD YMN+QLANTEEYIDG  +G LG
Sbjct: 1  MSLPLNPKPFLNGLTGKPVMVKLKWGMEYKGYLVSVDGYMNMQLANTEEYIDGALSGHLG 60

Query: 61 EILIRCNNVLYLRGVPEDEE 81
          E+LIRCNNVLY+RGV E+EE
Sbjct: 61 EVLIRCNNVLYIRGVEEEEE 80

[Close]

BLAST of Lag0004401 vs. ExPASy Swiss-Prot
Match: P62306 (Small nuclear ribonucleoprotein F OS=Homo sapiens OX=9606 GN=SNRPF PE=1 SV=1)

HSP 1 Score: 142.9 bits (359), Expect = 1.7e-33
Identity = 64/80 (80.00%), Postives = 73/80 (91.25%), Query Frame = 0


Query: 1  MSIPVNPKPFLNNLTGKTVVVKLKWGMEYKGFLVSVDSYMNLQLANTEEYIDGQFTGSLG 60
          MS+P+NPKPFLN LTGK V+VKLKWGMEYKG+LVSVD YMN+QLANTEEYIDG  +G LG
Sbjct: 1  MSLPLNPKPFLNGLTGKPVMVKLKWGMEYKGYLVSVDGYMNMQLANTEEYIDGALSGHLG 60

Query: 61 EILIRCNNVLYLRGVPEDEE 81
          E+LIRCNNVLY+RGV E+EE
Sbjct: 61 EVLIRCNNVLYIRGVEEEEE 80

[Close]

BLAST of Lag0004401 vs. ExPASy Swiss-Prot
Match: P62307 (Small nuclear ribonucleoprotein F OS=Mus musculus OX=10090 GN=Snrpf PE=1 SV=1)

HSP 1 Score: 142.9 bits (359), Expect = 1.7e-33
Identity = 64/80 (80.00%), Postives = 73/80 (91.25%), Query Frame = 0


Query: 1  MSIPVNPKPFLNNLTGKTVVVKLKWGMEYKGFLVSVDSYMNLQLANTEEYIDGQFTGSLG 60
          MS+P+NPKPFLN LTGK V+VKLKWGMEYKG+LVSVD YMN+QLANTEEYIDG  +G LG
Sbjct: 1  MSLPLNPKPFLNGLTGKPVMVKLKWGMEYKGYLVSVDGYMNMQLANTEEYIDGALSGHLG 60

Query: 61 EILIRCNNVLYLRGVPEDEE 81
          E+LIRCNNVLY+RGV E+EE
Sbjct: 61 EVLIRCNNVLYIRGVEEEEE 80

[Close]

BLAST of Lag0004401 vs. ExPASy Swiss-Prot
Match: P62321 (Small nuclear ribonucleoprotein F OS=Xenopus laevis OX=8355 GN=snrpf PE=3 SV=1)

HSP 1 Score: 142.9 bits (359), Expect = 1.7e-33
Identity = 64/80 (80.00%), Postives = 73/80 (91.25%), Query Frame = 0


Query: 1  MSIPVNPKPFLNNLTGKTVVVKLKWGMEYKGFLVSVDSYMNLQLANTEEYIDGQFTGSLG 60
          MS+P+NPKPFLN LTGK V+VKLKWGMEYKG+LVSVD YMN+QLANTEEYIDG  +G LG
Sbjct: 1  MSLPLNPKPFLNGLTGKPVMVKLKWGMEYKGYLVSVDGYMNMQLANTEEYIDGALSGHLG 60

Query: 61 EILIRCNNVLYLRGVPEDEE 81
          E+LIRCNNVLY+RGV E+EE
Sbjct: 61 EVLIRCNNVLYIRGVEEEEE 80

The following BLAST results are available for this feature:

BLAST of Lag0004401 vs. NCBI nr


Match Name	E-value	Identity	Description
XP_004146017.2	1.6e-41	98.85	probable small nuclear ribonucleoprotein F isoform X1 [Cucumis sativus] >XP_0084...	[more]
XP_022144158.1	1.4e-40	96.55	probable small nuclear ribonucleoprotein F [Momordica charantia]	[more]
XP_022961705.1	1.4e-40	97.70	probable small nuclear ribonucleoprotein F [Cucurbita moschata] >XP_022996693.1 ...	[more]
XP_022951684.1	2.4e-40	96.55	probable small nuclear ribonucleoprotein F [Cucurbita moschata] >XP_023538350.1 ...	[more]
KAF3452786.1	3.1e-40	96.51	hypothetical protein FNV43_RR03219 [Rhamnella rubrinervis]	[more]

BLAST of Lag0004401 vs. ExPASy Swiss-Prot


Match Name	E-value	Identity	Description
Q9SUM2	5.5e-40	87.21	Probable small nuclear ribonucleoprotein F OS=Arabidopsis thaliana OX=3702 GN=At...	[more]
Q3T0Z8	1.7e-33	80.00	Small nuclear ribonucleoprotein F OS=Bos taurus OX=9913 GN=SNRPF PE=3 SV=2	[more]
P62306	1.7e-33	80.00	Small nuclear ribonucleoprotein F OS=Homo sapiens OX=9606 GN=SNRPF PE=1 SV=1	[more]
P62307	1.7e-33	80.00	Small nuclear ribonucleoprotein F OS=Mus musculus OX=10090 GN=Snrpf PE=1 SV=1	[more]
P62321	1.7e-33	80.00	Small nuclear ribonucleoprotein F OS=Xenopus laevis OX=8355 GN=snrpf PE=3 SV=1	[more]

InterPro

Analysis Name: InterPro Annotations of Sponge gourd (AG-4) v1
Date Performed: 2022-08-01

Position :

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IPR Term	IPR Description	Source	Source Term	Source Description	Alignment
IPR001163	LSM domain, eukaryotic/archaea-type	SMART	SM00651	Sm3	coord: 9..74 e-value: 6.2E-25 score: 98.8
IPR001163	LSM domain, eukaryotic/archaea-type	PFAM	PF01423	LSM	coord: 10..72 e-value: 4.3E-22 score: 77.6
None	No IPR available	GENE3D	2.30.30.100		coord: 1..77 e-value: 3.8E-36 score: 124.7
None	No IPR available	PIRSF	PIRSF006609	snRNP_SmF	coord: 1..83 e-value: 2.0E-38 score: 128.1
None	No IPR available	PANTHER	PTHR11021:SF0	SMALL NUCLEAR RIBONUCLEOPROTEIN F	coord: 2..84
IPR016487	Sm-like protein Lsm6/SmF	PANTHER	PTHR11021	SMALL NUCLEAR RIBONUCLEOPROTEIN F SNRNP-F	coord: 2..84
IPR034100	Small nuclear ribonucleoprotein F	CDD	cd01722	Sm_F	coord: 6..74 e-value: 8.09431E-49 score: 146.974
IPR010920	LSM domain superfamily	SUPERFAMILY	50182	Sm-like ribonucleoproteins	coord: 7..77

Relationships

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


Feature Name	Unique Name	Type
Lag0004401.1	Lag0004401.1	mRNA

GO Annotation

GO Assignments

This gene is annotated with the following GO terms.

Category	Term Accession	Term Name
biological_process	GO:0000387	spliceosomal snRNP assembly
biological_process	GO:0000398	mRNA splicing, via spliceosome
cellular_component	GO:0071013	catalytic step 2 spliceosome
cellular_component	GO:0005685	U1 snRNP
cellular_component	GO:0005681	spliceosomal complex
molecular_function	GO:0003723	RNA binding