LXL04_029771 | RubberDandelionOmics

Gene overview

LXL04_029771

Reference: OH-1004 Chr: Chr06 Coordinates: 99962230-99964359 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1944 bp · LXL04_029771|LXL04_029771|OH1004|cDNA

ATGGATACGTTATATTCACCAATTTTGGGTCCTAAATATATATCTTCGAAGCCCCTAGTGTTACAATTGAACTCGGTTAAACACTTCCAATTTACGAATTCGCGCCCTTCTTTTCTAAATGAAAGACACTTTCATCGATTCCATCTTCCCAAAAAGAGTTCCTTTTCTGTTAGTGTTAACATAAATAAAGACTTCCGCGTCATCAAAGTGGTCGACgatgatgatgaagaggtactGGAGCAGGATAAAGAGTCCAATTT...

CDS

Download CDS FASTA

1944 bp · LXL04_029771|LXL04_029771|OH1004|CDS

ATGGATACGTTATATTCACCAATTTTGGGTCCTAAATATATATCTTCGAAGCCCCTAGTGTTACAATTGAACTCGGTTAAACACTTCCAATTTACGAATTCGCGCCCTTCTTTTCTAAATGAAAGACACTTTCATCGATTCCATCTTCCCAAAAAGAGTTCCTTTTCTGTTAGTGTTAACATAAATAAAGACTTCCGCGTCATCAAAGTGGTCGACGATGATGATGAAGAGGTACTGGAGCAGGATAAAGAGTCCAATTT...

Protein

Download Protein FASTA

647 aa · LXL04_029771|LXL04_029771|OH1004|PROTEIN

MDTLYSPILGPKYISSKPLVLQLNSVKHFQFTNSRPSFLNERHFHRFHLPKKSSFSVSVNINKDFRVIKVVDDDDEEVLEQDKESNLDWKDEFLGQIDPPNKKKQKEKSELLEESDTSDWCVRARKSALRSIQTRGLTSSMENLVTKKKKKKKIKKKLVVKKGKSIDFEDVELNIENLLDDDKDQLLRNVGIIAGGMFNERKEQTMKTFAEKLSKFSGPSNRSKEITLNREIVEAQTADEVLEIISDMIMAVAKGLSPSP...

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_029771`
TK1151 ID	TkA07G345980
OH-1004 ID	LXL04_029771
Relationship / confidence	Sequence Supported Annotation Or Model Conflict / Review
Protein identity (%)	97.800
Protein coverage (%)	TK1151 95.858 / OH-1004 50.077 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_029771

Location Chr06:99962230-99964359 (-)

Description Similar to RAP: RAP domain-containing protein, chloroplastic

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At2g31890`	RNA-binding protein required for chloroplast 16S rRNA maturation, an important process which supports chloroplast gene expression and biogenesis.	No verified direct reference in this release

Rice

Reference gene ID	Possible function	Papers / DOI
`Os03g0425000`	Probable RNA-binding protein that plays an essential role in chloroplast development.	No verified direct reference in this release

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_029771 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0000963 mitochondrial RNA processing Biological Process

GO:0006952 defense response Biological Process

GO:0044528 regulation of mitochondrial mRNA stability Biological Process

GO:1901259 chloroplast rRNA processing Biological Process

GO:0005634 nucleus Cellular Component

GO:0005759 mitochondrial matrix Cellular Component

GO:0009507 chloroplast Cellular Component

GO:0035770 ribonucleoprotein granule Cellular Component

GO:0042644 chloroplast nucleoid Cellular Component

GO:0042646 plastid nucleoid Cellular Component

GO:0003723 RNA binding Molecular Function

KEGG gene cross-reference

ath:AT2G31890

dosa:Os03g0425000

osa:4333151

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.

Plastid0.830

Rank 1 · LXL04_029771 · OH-1004

Mitochondrion0.125

Rank 2 · LXL04_029771 · OH-1004

Nucleus0.052

Rank 3 · LXL04_029771 · OH-1004

Cytoplasm0.024

Rank 4 · LXL04_029771 · OH-1004

Cell membrane0.013

Rank 5 · LXL04_029771 · 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.

PF26188.1RESC6302-401 aa

PF18741.8MTES_1575541-620 aa

PF08373.17RAP578-634 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_029771	`PF26188.1`	RESC6	302	401	5.2e-07	29.8
LXL04_029771	`PF18741.8`	MTES_1575	541	620	3.3e-07	31.0
LXL04_029771	`PF08373.17`	RAP	578	634	3.2e-17	63.0

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
`Q8VZE7`	Arabidopsis thaliana	RAP domain-containing protein, chloroplastic	61.538%	Swiss-Prot	strong database homology
`Q84MH1`	Oryza sativa subsp. japonica	RAP domain-containing protein, chloroplastic	54.182%	Swiss-Prot	strong database homology

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