LXL04_035369 | RubberDandelionOmics

Gene overview

LXL04_035369

Reference: OH-1004 Chr: Chr08 Coordinates: 21258859-21262474 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1182 bp · LXL04_035369|LXL04_035369|OH1004|cDNA

ATGATAAGTCCGGTGTTACCTTCCCACATCGTAATTAACCAATCGAGCGATCGTCGGCCGTTTGCTCTTCTCGGGCGCGGAATTCCTCCATTTTCCACTCTGCTCAATCGTTACGTCGCAATGTCTGACTGGCAACAGTATGCTCAAACAATAATATTCGGTTTGATATTTTCATTTCTTCTTGCAAAGCTCTTTTCTATAATATTCTCGTTTCGCGACCAAAATCTCCGTATTACTCGTGCTAACTCTGACGAAGATCA...

CDS

Download CDS FASTA

1182 bp · LXL04_035369|LXL04_035369|OH1004|CDS

ATGATAAGTCCGGTGTTACCTTCCCACATCGTAATTAACCAATCGAGCGATCGTCGGCCGTTTGCTCTTCTCGGGCGCGGAATTCCTCCATTTTCCACTCTGCTCAATCGTTACGTCGCAATGTCTGACTGGCAACAGTATGCTCAAACAATAATATTCGGTTTGATATTTTCATTTCTTCTTGCAAAGCTCTTTTCTATAATATTCTCGTTTCGCGACCAAAATCTCCGTATTACTCGTGCTAACTCTGACGAAGATCA...

Protein

Download Protein FASTA

393 aa · LXL04_035369|LXL04_035369|OH1004|PROTEIN

MISPVLPSHIVINQSSDRRPFALLGRGIPPFSTLLNRYVAMSDWQQYAQTIIFGLIFSFLLAKLFSIIFSFRDQNLRITRANSDEDQSYEKVSESESESPHKEKKPSAEFPKDYNTSDEDKPLVVQGHGNAWSSSDSDDDWEGVESTELDEAFSAATAFVAATAADRSSPKVSNDLQLQLYGLYKIATEGPCSVPQPSALKMTARAKWNAWQKLGAMPTDEAMLKYLEIITELYPTWVAGSTSKTRDGNANERSSNDTRP...

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_035369`
TK1151 ID	TkA04G137400
OH-1004 ID	LXL04_035369
Relationship / confidence	Rbh High Identity Coverage Synteny / Strict
Protein identity (%)	100.000
Protein coverage (%)	TK1151 100.000 / OH-1004 89.822 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_035369

Location Chr08:21258859-21262474 (-)

Description Similar to ACBP1: Acyl-CoA-binding domain-containing protein 1

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`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
`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

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_035369 · 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

bta:618245

dosa:Os04g0681900

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.

Cytoplasm0.235

Rank 1 · LXL04_035369 · OH-1004

Nucleus0.227

Rank 2 · LXL04_035369 · OH-1004

Endoplasmic reticulum0.199

Rank 3 · LXL04_035369 · OH-1004

Plastid0.175

Rank 4 · LXL04_035369 · OH-1004

Golgi apparatus0.147

Rank 5 · LXL04_035369 · 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.

PF00887.25ACBP150-229 aa

PF12796.14Ank_2268-341 aa

PF13637.13Ank_4282-331 aa

PF12796.14Ank_2283-374 aa

PF13857.13Ank_5299-351 aa

PF13606.13Ank_3310-338 aa

PF00023.37Ank311-342 aa

PF13637.13Ank_4315-364 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_035369	`PF00887.25`	ACBP	150	229	1.2e-25	90.1
LXL04_035369	`PF12796.14`	Ank_2	268	341	9.2e-29	100.6
LXL04_035369	`PF13637.13`	Ank_4	282	331	1.2e-18	67.5
LXL04_035369	`PF12796.14`	Ank_2	283	374	9.2e-29	100.6
LXL04_035369	`PF13857.13`	Ank_5	299	351	2.4e-14	54.0
LXL04_035369	`PF13606.13`	Ank_3	310	338	3e-11	43.1
LXL04_035369	`PF00023.37`	Ank	311	342	2.8e-17	62.5
LXL04_035369	`PF13637.13`	Ank_4	315	364	1.2e-18	67.5
LXL04_035369	`PF13857.13`	Ank_5	333	383	2.4e-14	54.0
LXL04_035369	`PF00023.37`	Ank	344	374	2.8e-17	62.5

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
`Q9SM23`	Arabidopsis thaliana	Acyl-CoA-binding domain-containing protein 1	61.473%	Swiss-Prot	strong database homology
`Q9STP8`	Arabidopsis thaliana	Acyl-CoA-binding domain-containing protein 2	57.851%	Swiss-Prot	strong database homology
`A3AYR1`	Oryza sativa subsp. japonica	Acyl-CoA-binding domain-containing protein 4	52.408%	Swiss-Prot	strong database homology

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