LXL04_013871 | RubberDandelionOmics

Gene overview

LXL04_013871

Reference: OH-1004 Chr: Chr03 Coordinates: 37241821-37243490 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1281 bp · LXL04_013871|LXL04_013871|OH1004|cDNA

atggacaataattttgagACGGAGAGCGTTAAGAAGAAGCTAAAAATTACCTTCACTTCACGAGCTACGAACACAGTAAAAGAATTTTTGCACAGATCTCCagaaacacacatatatatacttctTAAAATGGCTCAAAGAGCAGTTCCAATCGTAAAGAAACTCCTCTCCGGTACCCCACCACACGTCCGATCATGTCTACGCTCTATCACCTACATGCCACGACCCGGACGCGGCGGTACGATACCCGTCAACCCCAT...

CDS

Download CDS FASTA

1281 bp · LXL04_013871|LXL04_013871|OH1004|CDS

ATGGACAATAATTTTGAGACGGAGAGCGTTAAGAAGAAGCTAAAAATTACCTTCACTTCACGAGCTACGAACACAGTAAAAGAATTTTTGCACAGATCTCCAGAAACACACATATATATACTTCTTAAAATGGCTCAAAGAGCAGTTCCAATCGTAAAGAAACTCCTCTCCGGTACCCCACCACACGTCCGATCATGTCTACGCTCTATCACCTACATGCCACGACCCGGACGCGGCGGTACGATACCCGTCAACCCCAT...

Protein

Download Protein FASTA

426 aa · LXL04_013871|LXL04_013871|OH1004|PROTEIN

MDNNFETESVKKKLKITFTSRATNTVKEFLHRSPETHIYILLKMAQRAVPIVKKLLSGTPPHVRSCLRSITYMPRPGRGGTIPVNPITGEGIPRPVTLIPGDGIGPLVTGAVEQVFEAMRAPVIFEKFEVRGDMNIVPEDAMASIKKNRVCLKGGLITPVGGGVNSLNLLLRKELDLYVSLVNCFNLPGLPSRHENVNIVVIRENTEGEYSGLEHEVVPGVVESLKVITKFCSERIAQYAFEYAHLNNRKTVTAVHKANI...

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_013871`
TK1151 ID	TkA02G466880
OH-1004 ID	LXL04_013871
Relationship / confidence	Rbh High Identity Coverage Synteny / Strict
Protein identity (%)	100.000
Protein coverage (%)	TK1151 100.000 / OH-1004 89.906 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

Expand to load variant records for this gene.

Basic Information and Functional Annotation

Gene ID LXL04_013871

Location Chr03:37241821-37243490 (-)

Description Similar to IDH3: Isocitrate dehydrogenase [NAD] regulatory subunit 3, mitochondrial

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At4g35650`	Performs an essential role in the oxidative function of the citric acid cycle.	No verified direct reference in this release
`At4g35260`	Performs an essential role in the oxidative function of the citric acid cycle.	No verified direct reference in this release
`At2g17130`	Performs an essential role in the oxidative function of the citric acid cycle.	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_013871 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0006099 tricarboxylic acid cycle Biological Process

GO:0006102 isocitrate metabolic process Biological Process

GO:0005737 cytoplasm Cellular Component

GO:0005739 mitochondrion Cellular Component

GO:0005759 mitochondrial matrix Cellular Component

GO:0005829 cytosol Cellular Component

GO:0005886 plasma membrane Cellular Component

GO:0009507 chloroplast Cellular Component

GO:0045335 phagocytic vesicle Cellular Component

GO:0000287 magnesium ion binding Molecular Function

GO:0003723 RNA binding Molecular Function

GO:0004449 isocitrate dehydrogenase (NAD+) activity Molecular Function

KEGG gene cross-reference

ath:AT2G17130

ath:AT4G35260

ath:AT4G35650

ddi:DDB_G0293872

spo:2541894

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.

Mitochondrion0.858

Rank 1 · LXL04_013871 · OH-1004

Cytoplasm0.124

Rank 2 · LXL04_013871 · OH-1004

Nucleus0.064

Rank 3 · LXL04_013871 · OH-1004

Plastid0.042

Rank 4 · LXL04_013871 · OH-1004

Cell membrane0.041

Rank 5 · LXL04_013871 · 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.

PF00180.26Iso_dh96-418 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_013871	`PF00180.26`	Iso_dh	96	418	5.6e-79	266.7

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
`O81796`	Arabidopsis thaliana	Isocitrate dehydrogenase [NAD] regulatory subunit 3, mitochondrial	76.842%	Swiss-Prot	strong database homology
`Q8LFC0`	Arabidopsis thaliana	Isocitrate dehydrogenase [NAD] regulatory subunit 1, mitochondrial	79.775%	Swiss-Prot	strong database homology
`P93032`	Arabidopsis thaliana	Isocitrate dehydrogenase [NAD] regulatory subunit 2, mitochondrial	80.056%	Swiss-Prot	strong database homology

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