LXL04_031714 | RubberDandelionOmics

Gene overview

LXL04_031714

Reference: OH-1004 Chr: Chr07 Coordinates: 10135882-10137246 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

777 bp · LXL04_031714|LXL04_031714|OH1004|cDNA

CCTCGATGCATATATCCAAGATTCCAAGTCGCTCAAAGCAAGCGAGCTAAGCTACTTTTAAACCAACTTTTGTCGTATCCAACAGTCTGTGATAACCGGCATCTGGATCTATCACTTTGCATCTTCCTAGTTGATCCTTCATACAGAGAGGGAGAAAACGAAATCAACAGAAAAATGAATGTTGCTGGGGGGATTGGTGGTGGTGGCGGAGGCGACACCGATCTCAAATCTTCATCGCTCTCTCAATGGACCTTCACTGT...

CDS

Download CDS FASTA

708 bp · LXL04_031714|LXL04_031714|OH1004|CDS

TTGTCGTATCCAACAGTCTGTGATAACCGGCATCTGGATCTATCACTTTGCATCTTCCTAGTTGATCCTTCATACAGAGAGGGAGAAAACGAAATCAACAGAAAAATGAATGTTGCTGGGGGGATTGGTGGTGGTGGCGGAGGCGACACCGATCTCAAATCTTCATCGCTCTCTCAATGGACCTTCACTGTCTCCCGCCGATACCAGCACCTTCTCGACAAGTCAACTCCACACGTCCTCCACCGGTGGATCGGTTTCGC...

Protein

Download Protein FASTA

235 aa · LXL04_031714|LXL04_031714|OH1004|PROTEIN

MSYPTVCDNRHLDLSLCIFLVDPSYREGENEINRKMNVAGGIGGGGGGDTDLKSSSLSQWTFTVSRRYQHLLDKSTPHVLHRWIGFAVVLLIYALRVYFVQGFYIITYGLGIYILQLFLAFLSPQVDPELEDGPSLPTRGSEEFRPFVRRLPEFKFWYSLTKAFCIAFTLTFFSMFDVPVFWPILLFYWFILFISTMKRQIMHMIKYRYVPFSFGKQRYTGKKAPMVNDEASGRP

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_031714`
TK1151 ID	TkA08G125640
OH-1004 ID	LXL04_031714
Relationship / confidence	Rbh High Identity Coverage Synteny / Strict
Protein identity (%)	99.600
Protein coverage (%)	TK1151 91.085 / 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

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SNP / Indel variants and carrier samplesCRA009020 · OH-1004

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Basic Information and Functional Annotation

Gene ID LXL04_031714

Location Chr07:10135882-10137246 (-)

Description Similar to RER1A: Protein RER1A

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At4g39220`	Involved in the retrieval of endoplasmic reticulum membrane proteins from the early Golgi compartment.	No verified direct reference in this release
`At2g21600`	Involved in the retrieval of endoplasmic reticulum membrane proteins from the early Golgi compartment.	No verified direct reference in this release
`At2g23310`	Involved in the retrieval of endoplasmic reticulum membrane proteins from the early Golgi compartment.	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_031714 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0006621 protein retention in ER lumen Biological Process

GO:0006890 retrograde vesicle-mediated transport, Golgi to endoplasmic reticulum Biological Process

GO:0035437 maintenance of protein localization in endoplasmic reticulum Biological Process

GO:0000139 Golgi membrane Cellular Component

GO:0005783 endoplasmic reticulum Cellular Component

GO:0005794 Golgi apparatus Cellular Component

GO:0005801 cis-Golgi network Cellular Component

GO:0005886 plasma membrane Cellular Component

KEGG gene cross-reference

ath:AT2G21600

ath:AT2G23310

ath:AT4G39220

bta:100125922

gga:419397

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.

Endoplasmic reticulum0.525

Rank 1 · LXL04_031714 · OH-1004

Golgi apparatus0.235

Rank 2 · LXL04_031714 · OH-1004

Nucleus0.185

Rank 3 · LXL04_031714 · OH-1004

Cytoplasm0.121

Rank 4 · LXL04_031714 · OH-1004

Cell membrane0.089

Rank 5 · LXL04_031714 · 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.

PF03248.19Rer160-220 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_031714	`PF03248.19`	Rer1	60	220	1.6e-74	250.0

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.

Download current result

Protein	Organism	Description	Identity	Database	Confidence
`O48670`	Arabidopsis thaliana	Protein RER1A	66.851%	Swiss-Prot	strong database homology
`O48671`	Arabidopsis thaliana	Protein RER1B	64.286%	Swiss-Prot	strong database homology
`Q9ZWI7`	Arabidopsis thaliana	Protein RER1C	63.687%	Swiss-Prot	strong database homology

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