LXL04_005480 | RubberDandelionOmics

Gene overview

LXL04_005480

Reference: OH-1004 Chr: Chr01 Coordinates: 165057870-165061820 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

2196 bp · LXL04_005480|LXL04_005480|OH1004|cDNA

ATGCGAGTGAAGGCAATGTATCCCCTCTGTTGCATATCGCTGGAGAGTTCGGCGATCGGAGACAACTCGCCGGAGCCGATGCCGACTTTGTCGAGGTCTTGCTCTGTTGCCGACATGAGATCCGATCCCAATGCCATTGGTTGGCCCTCTTCTGGATCTGATTCCGGCTCCGGAACTAACAGCTTCGCCGGCGTTCTCTACAAATGGACTAACTACGGTAAAGGGTGGAGATCCAGGTGGTTTCTTCTCCGGAACGGCGT...

CDS

Download CDS FASTA

2196 bp · LXL04_005480|LXL04_005480|OH1004|CDS

ATGCGAGTGAAGGCAATGTATCCCCTCTGTTGCATATCGCTGGAGAGTTCGGCGATCGGAGACAACTCGCCGGAGCCGATGCCGACTTTGTCGAGGTCTTGCTCTGTTGCCGACATGAGATCCGATCCCAATGCCATTGGTTGGCCCTCTTCTGGATCTGATTCCGGCTCCGGAACTAACAGCTTCGCCGGCGTTCTCTACAAATGGACTAACTACGGTAAAGGGTGGAGATCCAGGTGGTTTCTTCTCCGGAACGGCGT...

Protein

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731 aa · LXL04_005480|LXL04_005480|OH1004|PROTEIN

MRVKAMYPLCCISLESSAIGDNSPEPMPTLSRSCSVADMRSDPNAIGWPSSGSDSGSGTNSFAGVLYKWTNYGKGWRSRWFLLRNGVLSYSKILRPENLIAADDVRFIGDVSSGRLKRLNSSGTRRNKHQKTVGIVHLKISSFRESRSDSRRFYIFTATKTLHLRTSLKEERVAWIEALASARNLFSLRRLNDKLSIVQTDISLSTERLKQRLLEEGTSESLVKDCEQIMLSEFSEIQGQVRVLCEERSSLLDTLRQLEA...

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_005480`
TK1151 ID	TkA01G043760
OH-1004 ID	LXL04_005480
Relationship / confidence	Rbh High Identity Coverage Synteny / Strict
Protein identity (%)	99.700
Protein coverage (%)	TK1151 95.946 / OH-1004 97.127 Coverage and evidence Coverage is the aligned span of the best-scoring HSP divided by representative protein length. A homolog match does not establish functional validation.
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_005480

Location Chr01:165057870-165061820 (-)

Description Similar to ORP2A: Oxysterol-binding protein-related protein 2A

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At4g22540`	May be involved in the transport of sterols.	No verified direct reference in this release
`At4g12460`	May be involved in the transport of sterols.	No verified direct reference in this release
`At4g08180`	May be involved in the transport of sterols.	No verified direct reference in this release
`At2g31020`	May be involved in the transport of sterols.	No verified direct reference in this release
`At1g13170`	May be involved in the transport of sterols.	No verified direct reference in this release

Rice

No hit for this species in the current source table.

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_005480 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0006869 lipid transport Biological Process

GO:0005634 nucleus Cellular Component

GO:0005829 cytosol Cellular Component

GO:0016020 membrane Cellular Component

GO:0032934 sterol binding Molecular Function

KEGG gene cross-reference

ath:AT1G13170

ath:AT4G08180

ath:AT4G12460

ath:AT4G22540

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.

Cytoplasm0.521

Rank 1 · LXL04_005480 · OH-1004

Nucleus0.226

Rank 2 · LXL04_005480 · OH-1004

Cell membrane0.204

Rank 3 · LXL04_005480 · OH-1004

Golgi apparatus0.187

Rank 4 · LXL04_005480 · OH-1004

Endoplasmic reticulum0.101

Rank 5 · LXL04_005480 · OH-1004

LocPro · Direct prediction · Computational prediction, not experimental localization

Open Subcellular Module

Predicted Functional Domains

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

PF00169.36PH63-182 aa

PF15413.13PH_1167-180 aa

PF01237.24Oxysterol_BP366-709 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_005480	`PF00169.36`	PH	63	182	3.7e-06	28.1
LXL04_005480	`PF15413.13`	PH_11	67	180	8.8e-10	39.7
LXL04_005480	`PF01237.24`	Oxysterol_BP	366	709	2.3e-125	419.0

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.

Download current result

Protein	Organism	Description	Identity	Database	Confidence
`Q940Y1`	Arabidopsis thaliana	Oxysterol-binding protein-related protein 2A	67.639%	Swiss-Prot	strong database homology
`Q9SU36`	Arabidopsis thaliana	Oxysterol-binding protein-related protein 2B	67.786%	Swiss-Prot	strong database homology
`Q8L751`	Arabidopsis thaliana	Oxysterol-binding protein-related protein 1C	58.443%	Swiss-Prot	strong database homology
`O80866`	Arabidopsis thaliana	Oxysterol-binding protein-related protein 1A	57.817%	Swiss-Prot	strong database homology
`Q9SAF0`	Arabidopsis thaliana	Oxysterol-binding protein-related protein 1D	55.571%	Swiss-Prot	strong database homology

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