LXL04_024640 | RubberDandelionOmics

Gene overview

LXL04_024640

Reference: OH-1004 Chr: Chr05 Coordinates: 95761129-95763708 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1266 bp · LXL04_024640|LXL04_024640|OH1004|cDNA

ATGTTGCAGAGACCGCGTAGAAGGTGTGAAGGCACAGCCATGGGTGTCATCGGTCTTGATCTTCGTCCTGGCCTCGGAATTGGTCCTTTTGCACTTGGTAAGTTTTCTGTTGATCTTGATCTAACTTTATCGTTGATTTCCATGGAAAGGATGCCGATATGTGAAGCATTTGCACAAATTGAACAACAACCCAACATCTATGACGTTGTTCACGTCAAGTACTTTGATGAGGATCCATTAAAGCTGGATGTTGTGATAAG...

CDS

Download CDS FASTA

1266 bp · LXL04_024640|LXL04_024640|OH1004|CDS

ATGTTGCAGAGACCGCGTAGAAGGTGTGAAGGCACAGCCATGGGTGTCATCGGTCTTGATCTTCGTCCTGGCCTCGGAATTGGTCCTTTTGCACTTGGTAAGTTTTCTGTTGATCTTGATCTAACTTTATCGTTGATTTCCATGGAAAGGATGCCGATATGTGAAGCATTTGCACAAATTGAACAACAACCCAACATCTATGACGTTGTTCACGTCAAGTACTTTGATGAGGATCCATTAAAGCTGGATGTTGTGATAAG...

Protein

Download Protein FASTA

421 aa · LXL04_024640|LXL04_024640|OH1004|PROTEIN

MLQRPRRRCEGTAMGVIGLDLRPGLGIGPFALGKFSVDLDLTLSLISMERMPICEAFAQIEQQPNIYDVVHVKYFDEDPLKLDVVISFPDHGFHLRFDPWSQRLRLIEIFDVKRLQMRYATSLIGGPSTPATFVAVYAVFGPTFPGIYDKERGVYTLFYPGLSFAFPIPSQYTDCCHNGEAELPLEFPDGTTPVTCRVCIYDSSADSKVGVGSLMNKASAPPLPNGSLYMEEVHVKLGEELWFTVGGQHIPFGASPQDVW...

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_024640`
TK1151 ID	TkA06G121710
OH-1004 ID	LXL04_024640
Relationship / confidence	Rbh High Identity Coverage Synteny / Strict
Protein identity (%)	96.000
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

Expand to load variant records for this gene.

Basic Information and Functional Annotation

Gene ID LXL04_024640

Location Chr05:95761129-95763708 (+)

Description Similar to At3g51130: UPF0183 protein At3g51130

Arabidopsis / Rice Reference Genes and Papers

Download references for this gene

Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At3g51130`	PHAF1 protein At3g51130.	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_024640 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0043001 Golgi to plasma membrane protein transport Biological Process

GO:0000407 phagophore assembly site Cellular Component

GO:0005739 mitochondrion Cellular Component

GO:0005802 trans-Golgi network Cellular Component

GO:0030165 PDZ domain binding Molecular Function

GO:0035254 glutamate receptor binding Molecular Function

KEGG gene cross-reference

ath:AT3G51130

dme:Dmel_CG7083

hsa:80262

mmu:234678

rno:207123

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.

Cytoplasm0.559

Rank 1 · LXL04_024640 · OH-1004

Nucleus0.440

Rank 2 · LXL04_024640 · OH-1004

Endoplasmic reticulum0.074

Rank 3 · LXL04_024640 · OH-1004

Cell membrane0.067

Rank 4 · LXL04_024640 · OH-1004

Golgi apparatus0.061

Rank 5 · LXL04_024640 · 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.

PF03676.20PHAF151-418 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_024640	`PF03676.20`	PHAF1	51	418	2.2e-137	459.2

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
`Q9SD33`	Arabidopsis thaliana	PHAF1 protein At3g51130	81.429%	Swiss-Prot	strong database homology

JBrowse

View in Genome Browser

Gene Card