LXL04_000565 | RubberDandelionOmics

Gene overview

LXL04_000565

Reference: OH-1004 Chr: Chr01 Coordinates: 10378519-10380412 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1512 bp · LXL04_000565|LXL04_000565|OH1004|cDNA

ATGGCTCCAGCTCTCACCTCTAATTCCTTTCTCCTGACCACAACACCTCGCACAAGTCTCACTTCCCTCAAAAACCCTAGGAGACTAATCGTCTGTGCGAAGAAATCCGATGTATCTTCTGGTGGAGAAGGCGAAACCGAGAATTCGAATCGATTTCGGTTCAATTTCGACTTCGGGAAGGTTTCTGATATGAAATCGTTGATTCCAGTTGTGAGCAATCCCTCATCATCGGGTACGTTATTTGGTAGACGTAAGGATCC...

CDS

Download CDS FASTA

1512 bp · LXL04_000565|LXL04_000565|OH1004|CDS

ATGGCTCCAGCTCTCACCTCTAATTCCTTTCTCCTGACCACAACACCTCGCACAAGTCTCACTTCCCTCAAAAACCCTAGGAGACTAATCGTCTGTGCGAAGAAATCCGATGTATCTTCTGGTGGAGAAGGCGAAACCGAGAATTCGAATCGATTTCGGTTCAATTTCGACTTCGGGAAGGTTTCTGATATGAAATCGTTGATTCCAGTTGTGAGCAATCCCTCATCATCGGGTACGTTATTTGGTAGACGTAAGGATCC...

Protein

Download Protein FASTA

503 aa · LXL04_000565|LXL04_000565|OH1004|PROTEIN

MAPALTSNSFLLTTTPRTSLTSLKNPRRLIVCAKKSDVSSGGEGETENSNRFRFNFDFGKVSDMKSLIPVVSNPSSSGTLFGRRKDPNTVFVAGATGQAGLRIAQTLLREGFSVRAGVPELSAAQDLARLAVNYKVISLEESKRLNAVESTFQDPEAIAKAIGNATKAVVTIGPFENGPTAEVTTSEALQFIQAAQLAGVSHVAIIYDTAAQAFTSTNNVLDGISTFFNNLFTKSQPLTLKEFLDGLIATDVNYTLIKTK...

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_000565`
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_000565

Location Chr01:10378519-10380412 (-)

Description Similar to PTAC16: Protein PLASTID TRANSCRIPTIONALLY ACTIVE 16, chloroplastic

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At3g46780`	Probably involved in the regulation of plastid gene expression.	No verified direct reference in this release
`At3g18890`	Involved in protein precursor import into chloroplasts.	No verified direct reference in this release
`At2g34460`	Uncharacterized protein At2g34460, chloroplastic.	No verified direct reference in this release

Rice

Reference gene ID	Possible function	Papers / DOI
`Os10g0100300`	Involved in protein precursor import into chloroplasts.	No verified direct reference in this release

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_000565 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0007623 circadian rhythm Biological Process

GO:0015031 protein transport Biological Process

GO:0005783 endoplasmic reticulum Cellular Component

GO:0005829 cytosol Cellular Component

GO:0009507 chloroplast Cellular Component

GO:0009534 chloroplast thylakoid Cellular Component

GO:0009535 chloroplast thylakoid membrane Cellular Component

GO:0009570 chloroplast stroma Cellular Component

GO:0009706 chloroplast inner membrane Cellular Component

GO:0009941 chloroplast envelope Cellular Component

GO:0010287 plastoglobule Cellular Component

GO:0042644 chloroplast nucleoid Cellular Component

KEGG gene cross-reference

ath:AT2G34460

ath:AT3G18890

ath:AT3G46780

dosa:Os10g0100300

osa:4347935

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.

Plastid0.986

Rank 1 · LXL04_000565 · OH-1004

Mitochondrion0.019

Rank 2 · LXL04_000565 · OH-1004

Cytoplasm0.018

Rank 3 · LXL04_000565 · OH-1004

Cell membrane0.016

Rank 4 · LXL04_000565 · OH-1004

Nucleus0.016

Rank 5 · LXL04_000565 · 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.

PF05368.20NmrA88-203 aa

PF13460.13NAD_binding_1094-303 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_000565	`PF05368.20`	NmrA	88	203	6.1e-07	30.0
LXL04_000565	`PF13460.13`	NAD_binding_10	94	303	2.8e-11	44.3

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
`Q9STF2`	Arabidopsis thaliana	Protein PLASTID TRANSCRIPTIONALLY ACTIVE 16, chloroplastic	51.020%	Swiss-Prot	strong database homology
`Q8H0U5`	Arabidopsis thaliana	Protein TIC 62, chloroplastic	25.000%	Swiss-Prot	weak database homology
`Q8H124`	Arabidopsis thaliana	Uncharacterized protein At2g34460, chloroplastic	24.701%	Swiss-Prot	weak database homology
`Q10A77`	Oryza sativa subsp. japonica	Protein TIC 62, chloroplastic	30.682%	Swiss-Prot	weak database homology

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