LXL04_016944 | RubberDandelionOmics

Gene overview

LXL04_016944

Reference: OH-1004 Chr: Chr03 Coordinates: 137374563-137379673 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1605 bp · LXL04_016944|LXL04_016944|OH1004|cDNA

ATGATTGCATTCTCTCCTAGCTTCTCTCATCTCACACTCCATACCCAACCACACCATCGTTCTAGAATCCAACATTACAATCAAATCCCTCTTCTTAGATCCAACATTACAATCAAATCCACAATCCCCATTTCTCAAAACCCTAAACAACAACTTTCAAGATCAAGCATTTCCAAGATCCGATCATGTCAAACCAATTCCGGAGAAGGATCACCTCCCGCGACTATCTCTACAGCAAACACCAAATTGGAAAATGTCTT...

CDS

Download CDS FASTA

1605 bp · LXL04_016944|LXL04_016944|OH1004|CDS

ATGATTGCATTCTCTCCTAGCTTCTCTCATCTCACACTCCATACCCAACCACACCATCGTTCTAGAATCCAACATTACAATCAAATCCCTCTTCTTAGATCCAACATTACAATCAAATCCACAATCCCCATTTCTCAAAACCCTAAACAACAACTTTCAAGATCAAGCATTTCCAAGATCCGATCATGTCAAACCAATTCCGGAGAAGGATCACCTCCCGCGACTATCTCTACAGCAAACACCAAATTGGAAAATGTCTT...

Protein

Download Protein FASTA

534 aa · LXL04_016944|LXL04_016944|OH1004|PROTEIN

MIAFSPSFSHLTLHTQPHHRSRIQHYNQIPLLRSNITIKSTIPISQNPKQQLSRSSISKIRSCQTNSGEGSPPATISTANTKLENVLYPVYVTVGGVVACLKPSTFSWFVERAPNSYSFSLGFIMLAMGLTLEFKDLVNLFMERPLSILYGCASQYTIMPFFGFMISKLLGLSTSLSVGLILLSCCPGGTASNVVTLIAQGDVPLSIVMTVCSTLGAVLLTPLLTMVLAGTYVHVDALKLSISTMQVVVAPVLVGSYLQS...

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_016944`
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_016944

Location Chr03:137374563-137379673 (-)

Description Similar to BASS1: Probable sodium/metabolite cotransporter BASS1, chloroplastic

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At1g78560`	May function as sodium-coupled metabolite transporter across the chloroplast envelope.	No verified direct reference in this release
`At2g26900`	Sodium-coupled metabolite transporter that plays a crucial role in pyruvate transport across the chloroplast envelope.	A plastidial sodium-dependent pyruvate transporter.2011 · DOI: 10.1038/nature10250

Rice

Reference gene ID	Possible function	Papers / DOI
`Os01g0645200`	May function as sodium-coupled metabolite transporter across the chloroplast envelope.	No verified direct reference in this release
`Os04g0381100`	May function as sodium-coupled metabolite transporter across the chloroplast envelope.	No verified direct reference in this release

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_016944 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0006814 sodium ion transport Biological Process

GO:0006849 plasma membrane pyruvate transport Biological Process

GO:0098717 pantothenate import across plasma membrane Biological Process

GO:0005886 plasma membrane Cellular Component

GO:0009507 chloroplast Cellular Component

GO:0009534 chloroplast thylakoid Cellular Component

GO:0009941 chloroplast envelope Cellular Component

GO:0016020 membrane Cellular Component

GO:0015293 symporter activity Molecular Function

GO:0050833 pyruvate transmembrane transporter activity Molecular Function

KEGG gene cross-reference

ath:AT1G78560

ath:AT2G26900

bsu:BSU19350

dosa:Os01g0645200

dosa:Os04g0381100

osa:4335634

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.

Plastid0.973

Rank 1 · LXL04_016944 · OH-1004

Mitochondrion0.023

Rank 2 · LXL04_016944 · OH-1004

Nucleus0.021

Rank 3 · LXL04_016944 · OH-1004

Peroxisome0.020

Rank 4 · LXL04_016944 · OH-1004

Cell membrane0.019

Rank 5 · LXL04_016944 · 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.

PF01758.22SBF120-297 aa

PF13593.12SBF_like120-382 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_016944	`PF01758.22`	SBF	120	297	5e-40	137.9
LXL04_016944	`PF13593.12`	SBF_like	120	382	1.5e-16	61.3

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
`Q93YR2`	Arabidopsis thaliana	Probable sodium/metabolite cotransporter BASS1, chloroplastic	43.312%	Swiss-Prot	moderate database homology
`Q1EBV7`	Arabidopsis thaliana	Sodium/pyruvate cotransporter BASS2, chloroplastic	37.563%	Swiss-Prot	moderate database homology
`Q5VRB2`	Oryza sativa subsp. japonica	Probable sodium/metabolite cotransporter BASS2, chloroplastic	40.510%	Swiss-Prot	moderate database homology
`Q7XVB3`	Oryza sativa subsp. japonica	Probable sodium/metabolite cotransporter BASS1, chloroplastic	42.675%	Swiss-Prot	moderate database homology

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