LXL04_003977 | RubberDandelionOmics

Gene overview

LXL04_003977

Reference: OH-1004 Chr: Chr01 Coordinates: 119683940-119685427 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1488 bp · LXL04_003977|LXL04_003977|OH1004|cDNA

ATGGCTTCGACGACGTGTTCCGCCGATACACTGGCAGCCATGTTTGGTACCAACACAACCAACGCTACTGGCGCCGCCGCTTTTATCTGCGATCAATTCAATACCGTCTCCACAAAGTTCAGCGACACCACATACGCCGTCGACTCCACATACCTTCTTTTCTCTGCCTATCTCGTCTTTTCCATGCAGCTTGGTTTCGCCATGCTCTGTGCAGGATCGGTCCGGGCCAAGAACACCATGAACATCATGCTCACTAACGT...

CDS

Download CDS FASTA

1488 bp · LXL04_003977|LXL04_003977|OH1004|CDS

ATGGCTTCGACGACGTGTTCCGCCGATACACTGGCAGCCATGTTTGGTACCAACACAACCAACGCTACTGGCGCCGCCGCTTTTATCTGCGATCAATTCAATACCGTCTCCACAAAGTTCAGCGACACCACATACGCCGTCGACTCCACATACCTTCTTTTCTCTGCCTATCTCGTCTTTTCCATGCAGCTTGGTTTCGCCATGCTCTGTGCAGGATCGGTCCGGGCCAAGAACACCATGAACATCATGCTCACTAACGT...

Protein

Download Protein FASTA

495 aa · LXL04_003977|LXL04_003977|OH1004|PROTEIN

MASTTCSADTLAAMFGTNTTNATGAAAFICDQFNTVSTKFSDTTYAVDSTYLLFSAYLVFSMQLGFAMLCAGSVRAKNTMNIMLTNVLDAAAGGLFYYLFGFAFAFGTPSNGFIGKHNFALQNMPSSNFDYSYFLYQWAFAIAAAGITSGSIAERTQFVAYLIYSAFLTGFVYPVVSHWFWSVDGWASATNMDNLFLGSGVIDFAGSGVVHMVGGIAGLYGALIEGPRIGRFDHSGRSVALRGHSASLVVLGTFLLWFGW...

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_003977`
Source version	OH-1004 / GCA_047496595.1_OSU_TarKok_2.0

Open Full ID Mapping

SNP / Indel variants and carrier samplesCRA009020 · OH-1004

Expand to load variant records for this gene.

Basic Information and Functional Annotation

Gene ID LXL04_003977

Location Chr01:119683940-119685427 (-)

Description Similar to AMT1-1: Ammonium transporter 1 member 1

Arabidopsis / Rice Reference Genes and Papers

Download references for this gene

Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At4g13510`	High affinity ammonium transporter probably involved in ammonium uptake from the soil, long-distance transport to the shoots and re-uptake of apoplastic ammonium that derives from photorespiration in shoots.	No verified direct reference in this release
`At3g24290`	Involved in ammonium transport.	No verified direct reference in this release
`At3g24300`	Ammonium transporter probably involved in ammonium uptake from the soil.	No verified direct reference in this release

Rice

No hit for this species in the current source table.

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_003977 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0009413 response to flooding Biological Process

GO:0010311 lateral root formation Biological Process

GO:0051258 protein polymerization Biological Process

GO:0072488 ammonium transmembrane transport Biological Process

GO:0080181 lateral root branching Biological Process

GO:0097272 ammonium homeostasis Biological Process

GO:0005886 plasma membrane Cellular Component

GO:0009506 plasmodesma Cellular Component

GO:0008519 ammonium channel activity Molecular Function

KEGG gene cross-reference

ath:AT3G24290

ath:AT3G24300

ath:AT4G13510

These KEGG gene identifiers are linked through homologous proteins; they do not establish pathway function for this gene.

Open Annotation Module

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.

Cell membrane0.869

Rank 1 · LXL04_003977 · OH-1004

Cytoplasm0.126

Rank 2 · LXL04_003977 · OH-1004

Endoplasmic reticulum0.045

Rank 3 · LXL04_003977 · OH-1004

Lysosome / Vacuole0.038

Rank 4 · LXL04_003977 · OH-1004

Golgi apparatus0.032

Rank 5 · LXL04_003977 · 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.

PF00909.27Ammonium_transp51-472 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_003977	`PF00909.27`	Ammonium_transp	51	472	8.3e-132	440.4

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.

Download current result

Protein	Organism	Description	Identity	Database	Confidence
`P54144`	Arabidopsis thaliana	Ammonium transporter 1 member 1	78.937%	Swiss-Prot	strong database homology
`Q9LK16`	Arabidopsis thaliana	Putative ammonium transporter 1 member 5	76.735%	Swiss-Prot	strong database homology
`Q9SQH9`	Arabidopsis thaliana	Ammonium transporter 1 member 3	75.911%	Swiss-Prot	strong database homology

JBrowse

View in Genome Browser

Gene Card