LXL04_015168 | RubberDandelionOmics

Gene overview

LXL04_015168

Reference: OH-1004 Chr: Chr03 Coordinates: 65244897-65247374 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1064 bp · LXL04_015168|LXL04_015168|OH1004|cDNA

ATGGTTAGTGACATTCCTTATGTAAAACATTTTGAAATTTTGCATATGTGGATAAACTTTACATTTTCTGCAGGCACGGGTGGACAGAGCCTATGCATTGGAAGACATGCATTTGGTGATCAATATAAAGCTACTGATGCAGTTATTAAAGGACCTGGGAAACTGAAGTTGGTTTTTGTTCCTGAAGGAGAAGGTGAAAAGCTAGAGTTAGAGGTTTACAACTTTACAGGTGCTGGAGGGGTAGCTCAGTCAATGTACAA...

CDS

Download CDS FASTA

1032 bp · LXL04_015168|LXL04_015168|OH1004|CDS

ATGGTTAGTGACATTCCTTATGTAAAACATTTTGAAATTTTGCATATGTGGATAAACTTTACATTTTCTGCAGGCACGGGTGGACAGAGCCTATGCATTGGAAGACATGCATTTGGTGATCAATATAAAGCTACTGATGCAGTTATTAAAGGACCTGGGAAACTGAAGTTGGTTTTTGTTCCTGAAGGAGAAGGTGAAAAGCTAGAGTTAGAGGTTTACAACTTTACAGGTGCTGGAGGGGTAGCTCAGTCAATGTACAA...

Protein

Download Protein FASTA

343 aa · LXL04_015168|LXL04_015168|OH1004|PROTEIN

MVSDIPYVKHFEILHMWINFTFSAGTGGQSLCIGRHAFGDQYKATDAVIKGPGKLKLVFVPEGEGEKLELEVYNFTGAGGVAQSMYNTDESITAFAEASMNTAYEKKFKDIFQQVYESNWKSKYEHRLIDDMVAYALKNMDTKVKSMIKLIKDADSFARRAEMYYKKRPELMKLVEEFYQAYRALAEQYDYATGELRHAQKTLQAAFPDQVHFTLPEDSSSSIPGKPKSYFARECDDEEELKFQLPELNSGWKKKLFIIL...

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_015168`
TK1151 ID	TkA05G285280
OH-1004 ID	LXL04_015168
Relationship / confidence	Non Reciprocal Best Hit / Complex relationship
Protein identity (%)	88.600
Protein coverage (%)	TK1151 48.466 / OH-1004 23.032 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_015168

Location Chr03:65244897-65247374 (-)

Description Similar to ICDH-1: Isocitrate dehydrogenase [NADP]

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At1g65930`	May supply 2-oxoglutarate for amino acid biosynthesis and ammonia assimilation via the glutamine synthetase/glutamate synthase (GS/GOGAT) pathway.	Cytosolic NADP-dependent isocitrate dehydrogenase contributes to redox homeostasis and the regulation of pathogen responses in Arabidopsis leaves.2010 · DOI: 10.1111/j.1365-3040.2010.02133.x

Rice

No hit for this species in the current source table.

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_015168 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0006097 glyoxylate cycle Biological Process

GO:0006099 tricarboxylic acid cycle Biological Process

GO:0006102 isocitrate metabolic process Biological Process

GO:0006739 NADP+ metabolic process Biological Process

GO:0010043 response to zinc ion Biological Process

GO:0042742 defense response to bacterium Biological Process

GO:0005634 nucleus Cellular Component

GO:0005739 mitochondrion Cellular Component

GO:0005829 cytosol Cellular Component

GO:0005886 plasma membrane Cellular Component

GO:0009506 plasmodesma Cellular Component

GO:0009507 chloroplast Cellular Component

KEGG gene cross-reference

ath:AT1G65930

nta:107815853

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 reticulum0.326

Rank 1 · LXL04_015168 · OH-1004

Golgi apparatus0.242

Rank 2 · LXL04_015168 · OH-1004

Cytoplasm0.236

Rank 3 · LXL04_015168 · OH-1004

Nucleus0.180

Rank 4 · LXL04_015168 · OH-1004

Cell membrane0.163

Rank 5 · LXL04_015168 · 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.

PF00180.26Iso_dh29-139 aa

PF07765.18KIP1135-190 aa

PF10260.15SAYSvFN285-322 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_015168	`PF00180.26`	Iso_dh	29	139	5.9e-06	26.5
LXL04_015168	`PF07765.18`	KIP1	135	190	3.5e-22	79.0
LXL04_015168	`PF10260.15`	SAYSvFN	285	322	3.7e-08	33.8

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.

Download current result

Protein	Organism	Description	Identity	Database	Confidence
`Q9SRZ6`	Arabidopsis thaliana	Cytosolic isocitrate dehydrogenase [NADP]	63.235%	Swiss-Prot	weak database homology

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