LXL04_022522 | RubberDandelionOmics

Gene overview

LXL04_022522

Reference: OH-1004 Chr: Chr04 Coordinates: 152142249-152143415 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1155 bp · LXL04_022522|LXL04_022522|OH1004|cDNA

aTGGAATACTTGCATCACATAATCCCGAATCTGAAATGTTTTATGATTGTAGAGTGCATAGTACGCATGTTAAATCTGAATCAACCTACAATTGCAAGTGGAACAGCAAACGAGGAAGTGTACAAGATACTGATTTATGACAAGTTTTGTCAAGACATCCTGTCCCCGCTCATCCATGTGAAGGATCTCCGCAAGCATGGTGTGACACTGTACGTCCTTATCGATAAAAACCACAAGCCTATTGTGGATGTTCCTGCTGT...

CDS

Download CDS FASTA

1155 bp · LXL04_022522|LXL04_022522|OH1004|CDS

ATGGAATACTTGCATCACATAATCCCGAATCTGAAATGTTTTATGATTGTAGAGTGCATAGTACGCATGTTAAATCTGAATCAACCTACAATTGCAAGTGGAACAGCAAACGAGGAAGTGTACAAGATACTGATTTATGACAAGTTTTGTCAAGACATCCTGTCCCCGCTCATCCATGTGAAGGATCTCCGCAAGCATGGTGTGACACTGTACGTCCTTATCGATAAAAACCACAAGCCTATTGTGGATGTTCCTGCTGT...

Protein

Download Protein FASTA

384 aa · LXL04_022522|LXL04_022522|OH1004|PROTEIN

MEYLHHIIPNLKCFMIVECIVRMLNLNQPTIASGTANEEVYKILIYDKFCQDILSPLIHVKDLRKHGVTLYVLIDKNHKPIVDVPAVYFVKPCQHNIQRIISDASNSLYDYFHLNFSWSIPRPLLEDVATGTLNSDSIQRVSNVHDQYLEFVTLEDNLFSIADKSCYVRLNDPKATDREIEEIIEKLVSGLLCVLATLAVVLNHSLPTWRWLHHCWTSDHLLVKNNLFSESGNFMSAFQRPILCLFDGNLELSVAIQHNF...

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_022522`
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_022522

Location Chr04:152142249-152143415 (-)

Description Similar to SLY1: SEC1 family transport protein SLY1

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At2g17980`	May be involved in the early secretory pathway.	No verified direct reference in this release

Rice

Reference gene ID	Possible function	Papers / DOI
`Os03g0620800`	May be involved in the early secretory pathway.	No verified direct reference in this release

Functional annotation source

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Functional annotation source: OH1004 · LXL04_022522 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0001666 response to hypoxia Biological Process

GO:0006886 intracellular protein transport Biological Process

GO:0006888 endoplasmic reticulum to Golgi vesicle-mediated transport Biological Process

GO:0006890 retrograde vesicle-mediated transport, Golgi to endoplasmic reticulum Biological Process

GO:0006892 post-Golgi vesicle-mediated transport Biological Process

GO:0009636 response to toxic substance Biological Process

GO:0051223 regulation of protein transport Biological Process

GO:0060628 regulation of ER to Golgi vesicle-mediated transport Biological Process

GO:1902902 negative regulation of autophagosome assembly Biological Process

GO:0000139 Golgi membrane Cellular Component

GO:0005739 mitochondrion Cellular Component

GO:0005789 endoplasmic reticulum membrane Cellular Component

KEGG gene cross-reference

ath:AT2G17980

dosa:Os03g0620800

hsa:23256

mmu:76983

rno:54350

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.

View expression for this gene

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.

Cytoplasm0.504

Rank 1 · LXL04_022522 · OH-1004

Nucleus0.230

Rank 2 · LXL04_022522 · OH-1004

Golgi apparatus0.144

Rank 3 · LXL04_022522 · OH-1004

Cell membrane0.124

Rank 4 · LXL04_022522 · OH-1004

Endoplasmic reticulum0.115

Rank 5 · LXL04_022522 · 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.

PF00995.29Sec142-323 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_022522	`PF00995.29`	Sec1	42	323	5.2e-51	175.2

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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Protein	Organism	Description	Identity	Database	Confidence
`Q9SL48`	Arabidopsis thaliana	SEC1 family transport protein SLY1	64.000%	Swiss-Prot	strong database homology
`Q851W1`	Oryza sativa subsp. japonica	SEC1 family transport protein SLY1	46.111%	Swiss-Prot	moderate database homology

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