LXL04_007667 | RubberDandelionOmics

Gene overview

LXL04_007667

Reference: OH-1004 Chr: Chr02 Coordinates: 55663899-55666461 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1170 bp · LXL04_007667|LXL04_007667|OH1004|cDNA

ATGACTAGTCTCAGCATTAGGATGCCGAGTCTCGCCATTAACACCAGACGAATCTCACCTTCTCTCTCATTAAAACCCATCATAATCCCAGCTACATATTTCACAAAATCAGCAACAAACGGCTATAAAACCCTCACACTACCACCCAATTCGGTTTCCGAAAGCTCGGTTTCATTACCCGTGGGAGCCATTGATGATGACGACGACAATGATGATCCAACTGCAGAAGTGAGTTATCTTGACCCCGAAACCGATCCAGA...

CDS

Download CDS FASTA

1170 bp · LXL04_007667|LXL04_007667|OH1004|CDS

ATGACTAGTCTCAGCATTAGGATGCCGAGTCTCGCCATTAACACCAGACGAATCTCACCTTCTCTCTCATTAAAACCCATCATAATCCCAGCTACATATTTCACAAAATCAGCAACAAACGGCTATAAAACCCTCACACTACCACCCAATTCGGTTTCCGAAAGCTCGGTTTCATTACCCGTGGGAGCCATTGATGATGACGACGACAATGATGATCCAACTGCAGAAGTGAGTTATCTTGACCCCGAAACCGATCCAGA...

Protein

Download Protein FASTA

389 aa · LXL04_007667|LXL04_007667|OH1004|PROTEIN

MTSLSIRMPSLAINTRRISPSLSLKPIIIPATYFTKSATNGYKTLTLPPNSVSESSVSLPVGAIDDDDDNDDPTAEVSYLDPETDPESITEWELDFCSRPILDIRGKKIWELVACDSSLSLQYTKYFPNNVINSITLKDAIVSICDELDVPLPEKIRFFRSQMQTIITKACKELGIKPIPSKRVCAISAFLKLFVLFQCLSLLLWLEERYETIYTRHPGFQKGSKPLLALDNPFPMELPDSLYGEKWAFVQLPFSDVKKE...

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_007667`
TK1151 ID	TkA03G203310
OH-1004 ID	LXL04_007667
Relationship / confidence	Multi Source To Oh1004 / Complex relationship
Protein identity (%)	100.000
Protein coverage (%)	TK1151 100.000 / OH-1004 100.000 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

Open Full ID Mapping

SNP / Indel variants and carrier samplesCRA009020 · OH-1004

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Basic Information and Functional Annotation

Gene ID LXL04_007667

Location Chr02:55663899-55666461 (-)

Description Similar to ATAB2: Protein TAB2 homolog, chloroplastic

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At3g08010`	Nuclear genome-encoded A/U-rich RNA-binding protein involved in the biogenesis of photosystem I (PSI) and II (PSII).	ATAB2 is a novel factor in the signalling pathway of light-controlled synthesis of photosystem proteins.2006 · DOI: 10.1038/sj.emboj.7601472

Rice

Reference gene ID	Possible function	Papers / DOI
`Os02g0610800`	Nuclear genome-encoded factor involved in the biogenesis of photosystem I (PSI).	No verified direct reference in this release

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_007667 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0006412 translation Biological Process

GO:0006629 lipid metabolic process Biological Process

GO:0009658 chloroplast organization Biological Process

GO:0009704 de-etiolation Biological Process

GO:0035556 intracellular signal transduction Biological Process

GO:0048564 photosystem I assembly Biological Process

GO:0009507 chloroplast Cellular Component

GO:0003723 RNA binding Molecular Function

GO:0004435 phosphatidylinositol-4,5-bisphosphate phospholipase C activity Molecular Function

KEGG gene cross-reference

ath:AT3G08010

dosa:Os02g0610800

zma:100284484

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.

Plastid0.966

Rank 1 · LXL04_007667 · OH-1004

Nucleus0.040

Rank 2 · LXL04_007667 · OH-1004

Mitochondrion0.029

Rank 3 · LXL04_007667 · OH-1004

Cytoplasm0.024

Rank 4 · LXL04_007667 · OH-1004

Peroxisome0.015

Rank 5 · LXL04_007667 · 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.

PF06485.18Tab2-like_N92-192 aa

PF20429.5Tab2-like_C226-381 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_007667	`PF06485.18`	Tab2-like_N	92	192	4.8e-31	107.6
LXL04_007667	`PF20429.5`	Tab2-like_C	226	381	7.3e-46	156.4

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
`Q9SFB3`	Arabidopsis thaliana	Protein TAB2 homolog, chloroplastic	67.347%	Swiss-Prot	strong database homology
`Q6K9C1`	Oryza sativa subsp. japonica	Protein TAB2 homolog, chloroplastic	66.772%	Swiss-Prot	strong database homology

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