LXL04_017437 | RubberDandelionOmics

Gene overview

LXL04_017437

Reference: OH-1004 Chr: Chr03 Coordinates: 149221419-149222448 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

723 bp · LXL04_017437|LXL04_017437|OH1004|cDNA

ATGGATTTTAAGAGATTTCCTAATATTATTTACAAACTTTTGGAATCAAGTTTTGGGCGCAGAACATCAATGAGCGTATTTGGAGGAGACAGTTGGGGAAGAGAAGCACAGCACCGGAAGAGAAGAGTCGCCGATCTCCTGCTCGATGCAGCCGGCGATCATTCTTCCTACAGAAAACTTCCTAGCGGCAAATATGCATGCCTCGTGTGCCCTCATACTCCCGTCATCGATACCCCTCTCATGCTCTCTGTTCACGCTAA...

CDS

Download CDS FASTA

723 bp · LXL04_017437|LXL04_017437|OH1004|CDS

ATGGATTTTAAGAGATTTCCTAATATTATTTACAAACTTTTGGAATCAAGTTTTGGGCGCAGAACATCAATGAGCGTATTTGGAGGAGACAGTTGGGGAAGAGAAGCACAGCACCGGAAGAGAAGAGTCGCCGATCTCCTGCTCGATGCAGCCGGCGATCATTCTTCCTACAGAAAACTTCCTAGCGGCAAATATGCATGCCTCGTGTGCCCTCATACTCCCGTCATCGATACCCCTCTCATGCTCTCTGTTCACGCTAA...

Protein

Download Protein FASTA

240 aa · LXL04_017437|LXL04_017437|OH1004|PROTEIN

MDFKRFPNIIYKLLESSFGRRTSMSVFGGDSWGREAQHRKRRVADLLLDAAGDHSSYRKLPSGKYACLVCPHTPVIDTPLMLSVHAKARRHVDAELRLKQREEERQNEMNKRMAISINSTSMSKFCNGDTSTKRINLASKPLIEKTQKDSFEVLHHGNSEKSSASNSQSRCSPTNDSTSIEINASGKDVVQLLLDYKEQREKELKFISAGWKRDCHGGWFRDENVEFDSDEEDPNVSLAL

Flanking Sequence Download

Sequence orientation and download details

Upstream/downstream are capped at 10000 bp per side. Negative-strand genes are reverse-complemented so the final FASTA follows transcriptional 5′→3′ orientation.

ID Mapping

Input ID	`LXL04_017437`
Source version	OH-1004 / GCA_047496595.1_OSU_TarKok_2.0

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SNP / Indel variants and carrier samplesCRA009020 · OH-1004

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Basic Information and Functional Annotation

Gene ID	`LXL04_017437`
Location	Chr03:149221419-149222448 (-)
Description	Similar to Scnm1: Sodium channel modifier 1
Arabidopsis / Rice Reference Genes and Papers	Download references for this gene Arabidopsis No hit for this species in the current source table. Rice No hit for this species in the current source table.
Functional annotation source	View annotation sources Functional annotation source: OH1004 · `LXL04_017437` · GCA_047496595.1_OSU_TarKok_2.0.
GO annotations (OH1004 source)	GO:0000380 alternative mRNA splicing, via spliceosome Biological Process GO:0000388 spliceosome conformational change to release U4 (or U4atac) and U1 (or U11) Biological Process GO:0000398 mRNA splicing, via spliceosome Biological Process GO:0008380 RNA splicing Biological Process GO:0005634 nucleus Cellular Component GO:0005681 spliceosomal complex Cellular Component GO:0005689 U12-type spliceosomal complex Cellular Component GO:0016607 nuclear speck Cellular Component GO:0071016 U12-type precatalytic spliceosome Cellular Component GO:0071018 U12-type catalytic step 2 spliceosome Cellular Component GO:0008270 zinc ion binding Molecular Function GO:0019899 enzyme binding Molecular Function
KEGG gene cross-reference	bta:505644 dre:321696 hsa:100534012 hsa:79005 mmu:69269 xla:734762 These KEGG gene identifiers are linked through homologous proteins; they do not establish pathway function for this gene.

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Gene expression

View expression in different studies, tissues and treatments. Results are presented separately by study and measurement unit.

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Data sources and gene correspondence

Expression data come from public transcriptome studies. Reference genomes, sample metadata and measurement units are shown with the results. Ambiguous cross-reference correspondences do not select an expression record automatically; missing values do not mean zero expression.

Subcellular Localization Top 5

Computational predictions or homology annotations below do not replace localization experiments.

Nucleus0.696

Rank 1 · LXL04_017437 · OH-1004

Cytoplasm0.313

Rank 2 · LXL04_017437 · OH-1004

Mitochondrion0.043

Rank 3 · LXL04_017437 · OH-1004

Cell membrane0.034

Rank 4 · LXL04_017437 · OH-1004

Endoplasmic reticulum0.024

Rank 5 · LXL04_017437 · OH-1004

LocPro · Direct prediction · Computational prediction, not experimental localization

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Predicted Functional Domains

Domain results are from Pfam-A/HMMER; positions are amino-acid coordinates on the protein sequence.

PF15803.11zf-SCNM167-92 aa

PF15805.11SCNM1_acidic200-235 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_017437	`PF15803.11`	zf-SCNM1	67	92	4e-10	39.9
LXL04_017437	`PF15805.11`	SCNM1_acidic	200	235	3.6e-12	46.4

Arabidopsis / Rice Protein Homology

Only Arabidopsis and rice are shown. Swiss-Prot entries are reviewed; TrEMBL entries are supplementary sequence candidates. Similarity is not experimental validation.

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