LXL04_021583 | RubberDandelionOmics

Gene overview

LXL04_021583

Reference: OH-1004 Chr: Chr04 Coordinates: 132808165-132809754 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

975 bp · LXL04_021583|LXL04_021583|OH1004|cDNA

ATGGCTATGGCTGACTGGCAACAGTACACGCAATCAGTGGTATTCGGTCTTGTTTTCTCCTTTCTTCTTGCTAAACTCTTCTCGATAATCTTCTCTTTCCGAGATGAAAATGAAAACCTCGGGAACCCTAGCGAAGTCGTAACTCCATCGGAACCCCATTGGAAATCGGCAGAAGACGATAAAATCTCAGACGCGGAGTTCGCTGGGAAACGTATTACTAGCGGCGAAGAAGAGCCGTTGGTTGATCAACAAAAGAAAGT...

CDS

Download CDS FASTA

975 bp · LXL04_021583|LXL04_021583|OH1004|CDS

ATGGCTATGGCTGACTGGCAACAGTACACGCAATCAGTGGTATTCGGTCTTGTTTTCTCCTTTCTTCTTGCTAAACTCTTCTCGATAATCTTCTCTTTCCGAGATGAAAATGAAAACCTCGGGAACCCTAGCGAAGTCGTAACTCCATCGGAACCCCATTGGAAATCGGCAGAAGACGATAAAATCTCAGACGCGGAGTTCGCTGGGAAACGTATTACTAGCGGCGAAGAAGAGCCGTTGGTTGATCAACAAAAGAAAGT...

Protein

Download Protein FASTA

324 aa · LXL04_021583|LXL04_021583|OH1004|PROTEIN

MAMADWQQYTQSVVFGLVFSFLLAKLFSIIFSFRDENENLGNPSEVVTPSEPHWKSAEDDKISDAEFAGKRITSGEEEPLVDQQKKVADTGSDSDGDWEGVESTELDEAFCAASAFVAAAAVADRSFPKLSNENKLQLYGLYKIATEGPCTVPQPSAIKMNARVKWNSWNKLGAMPTEEAMHKYLEIITELYPNWADGLKSKTRSVDSNEHEEPVNGNETKMEAIHDFAKEGDIKNLLKCLESGVSINTKDSEGRTPLHW...

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_021583`
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_021583

Location Chr04:132808165-132809754 (+)

Description Similar to ACBP2: Acyl-CoA-binding domain-containing protein 2

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At4g27780`	Binds medium- and long-chain acyl-CoA esters with very high affinity.	Single amino acid substitutions at the acyl-CoA-binding domain interrupt 14[C]palmitoyl-CoA binding of ACBP2, an Arabidopsis acyl-CoA-binding protein with ankyrin repeats.2000 · DOI: 10.1023/a:1026524108095 ACBP4 and ACBP5, novel Arabidopsis acyl-CoA-binding proteins with kelch motifs that bind oleoyl-CoA.2004 · DOI: 10.1007/s11103-004-0642-z Overexpression of membrane-associated acyl-CoA-binding protein ACBP1 enhances lead tolerance in Arabidopsis.2008 · DOI: 10.1111/j.1365-313x.2008.03402.x
`At5g53470`	Binds medium- and long-chain acyl-CoA esters with very high affinity.	Arabidopsis ACBP3 is an extracellularly targeted acyl-CoA-binding protein.2006 · DOI: 10.1007/s00425-005-0139-2 Overexpression of membrane-associated acyl-CoA-binding protein ACBP1 enhances lead tolerance in Arabidopsis.2008 · DOI: 10.1111/j.1365-313x.2008.03402.x Acyl-CoA-Binding Protein ACBP1 Modulates Sterol Synthesis during Embryogenesis.2017 · DOI: 10.1104/pp.17.00412 Arabidopsis ACYL-COA-BINDING PROTEIN1 interacts with STEROL C4-METHYL OXIDASE1-2 to modulate gene expression of homeodomain-leucine zipper IV transcription factors.2018 · DOI: 10.1111/nph.14965

Rice

Reference gene ID	Possible function	Papers / DOI
`Os04g0681900`	Binds medium- and long-chain acyl-CoA esters with high affinity.	The rice acyl-CoA-binding protein gene family: phylogeny, expression and functional analysis.2011 · DOI: 10.1111/j.1469-8137.2010.03546.x Subcellular localization of rice acyl-CoA-binding proteins (ACBPs) indicates that OsACBP6::GFP is targeted to the peroxisomes.2014 · DOI: 10.1111/nph.12809

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_021583 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0001666 response to hypoxia Biological Process

GO:0006629 lipid metabolic process Biological Process

GO:0006869 lipid transport Biological Process

GO:0009409 response to cold Biological Process

GO:0009737 response to abscisic acid Biological Process

GO:0010029 regulation of seed germination Biological Process

GO:0010162 seed dormancy process Biological Process

GO:0010288 response to lead ion Biological Process

GO:0048316 seed development Biological Process

GO:0055089 fatty acid homeostasis Biological Process

GO:0055092 sterol homeostasis Biological Process

GO:1900140 regulation of seedling development Biological Process

KEGG gene cross-reference

ath:AT4G27780

ath:AT5G53470

dosa:Os04g0681900

dre:324090

hsa:84320

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.

Endoplasmic reticulum0.312

Rank 1 · LXL04_021583 · OH-1004

Nucleus0.204

Rank 2 · LXL04_021583 · OH-1004

Cytoplasm0.200

Rank 3 · LXL04_021583 · OH-1004

Golgi apparatus0.151

Rank 4 · LXL04_021583 · OH-1004

Plastid0.130

Rank 5 · LXL04_021583 · 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.

PF00887.25ACBP108-187 aa

PF24521.3Ank_KRIT1217-308 aa

PF13637.13Ank_4225-274 aa

PF12796.14Ank_2226-316 aa

PF13857.13Ank_5244-294 aa

PF13606.13Ank_3253-281 aa

PF00023.37Ank254-285 aa

PF13637.13Ank_4258-307 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_021583	`PF00887.25`	ACBP	108	187	2e-24	86.3
LXL04_021583	`PF24521.3`	Ank_KRIT1	217	308	7.9e-07	29.6
LXL04_021583	`PF13637.13`	Ank_4	225	274	5.5e-26	90.8
LXL04_021583	`PF12796.14`	Ank_2	226	316	2.3e-18	67.3
LXL04_021583	`PF13857.13`	Ank_5	244	294	4.3e-16	59.5
LXL04_021583	`PF13606.13`	Ank_3	253	281	9.1e-14	50.8
LXL04_021583	`PF00023.37`	Ank	254	285	2.9e-19	68.8
LXL04_021583	`PF13637.13`	Ank_4	258	307	5.5e-26	90.8

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
`Q9STP8`	Arabidopsis thaliana	Acyl-CoA-binding domain-containing protein 2	50.592%	Swiss-Prot	strong database homology
`Q9SM23`	Arabidopsis thaliana	Acyl-CoA-binding domain-containing protein 1	50.760%	Swiss-Prot	strong database homology
`A3AYR1`	Oryza sativa subsp. japonica	Acyl-CoA-binding domain-containing protein 4	46.988%	Swiss-Prot	moderate database homology

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