LXL04_025647 | RubberDandelionOmics

Gene overview

LXL04_025647

Reference: OH-1004 Chr: Chr05 Coordinates: 114692854-114693804 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

723 bp · LXL04_025647|LXL04_025647|OH1004|cDNA

ATGCCTGAGGGAATAACTTCTGAAAATCTCATCAACAACATCATGGACACACTCTCCGATAAGCTTCAAAAGCAGAATTCTGGTTCATACTTCGTTGAAGAAAGATCACACAATGTCTCTACCCAGTTTAACAAGCTTTTCGGGAGACAAAAGCCAATTCACAACATCTTAGGTGGTGGCAAATCTGCTGATGTGCTCTTATGGAGGAACAAAAAGATATCAGCAAGTGTCTTATGTGGTGCAACTGCAGTTTGGGTGCT...

CDS

Download CDS FASTA

723 bp · LXL04_025647|LXL04_025647|OH1004|CDS

ATGCCTGAGGGAATAACTTCTGAAAATCTCATCAACAACATCATGGACACACTCTCCGATAAGCTTCAAAAGCAGAATTCTGGTTCATACTTCGTTGAAGAAAGATCACACAATGTCTCTACCCAGTTTAACAAGCTTTTCGGGAGACAAAAGCCAATTCACAACATCTTAGGTGGTGGCAAATCTGCTGATGTGCTCTTATGGAGGAACAAAAAGATATCAGCAAGTGTCTTATGTGGTGCAACTGCAGTTTGGGTGCT...

Protein

Download Protein FASTA

240 aa · LXL04_025647|LXL04_025647|OH1004|PROTEIN

MPEGITSENLINNIMDTLSDKLQKQNSGSYFVEERSHNVSTQFNKLFGRQKPIHNILGGGKSADVLLWRNKKISASVLCGATAVWVLFEWLDYNFLPLLCFGLVVCIIGQFIWSNLLKGAPPRVILPDELFVNIAKLVADEVNRALGYLQYVGSRGDIKQLALVVGGLLTAAIIGTCCNFWTVIYIGFVAAHILPVVYEKYDDQIDSAVYNVLGRVQTHYSKLDASLLSKIPKAKGKKFA

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_025647`
TK1151 ID	TkA06G047460
OH-1004 ID	LXL04_025647
Relationship / confidence	Rbh High Identity Coverage Synteny / Strict
Protein identity (%)	100.000
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

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SNP / Indel variants and carrier samplesCRA009020 · OH-1004

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Basic Information and Functional Annotation

Gene ID LXL04_025647

Location Chr05:114692854-114693804 (-)

Description Similar to RTNLB8: Reticulon-like protein B8

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At3g10260`	Reticulon-like protein B8.	No verified direct reference in this release
`At2g46170`	Reticulon-like protein B5.	No verified direct reference in this release
`At3g61560`	Reticulon-like protein B6.	No verified direct reference in this release
`At4g11220`	Plays a role in the Agrobacterium-mediated plant transformation via its interaction with VirB2, the major component of the T-pilus.	Plant proteins that interact with VirB2, the Agrobacterium tumefaciens pilin protein, mediate plant transformation.2004 · DOI: 10.1105/tpc.104.026476
`At4g23630`	Plays a role in the Agrobacterium-mediated plant transformation via its interaction with VirB2, the major component of the T-pilus.	Plant proteins that interact with VirB2, the Agrobacterium tumefaciens pilin protein, mediate plant transformation.2004 · DOI: 10.1105/tpc.104.026476

Rice

No hit for this species in the current source table.

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_025647 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0009617 response to bacterium Biological Process

GO:0050687 negative regulation of defense response to virus Biological Process

GO:0071786 endoplasmic reticulum tubular network organization Biological Process

GO:0000325 plant-type vacuole Cellular Component

GO:0005634 nucleus Cellular Component

GO:0005739 mitochondrion Cellular Component

GO:0005783 endoplasmic reticulum Cellular Component

GO:0005789 endoplasmic reticulum membrane Cellular Component

GO:0005794 Golgi apparatus Cellular Component

GO:0005829 cytosol Cellular Component

GO:0005886 plasma membrane Cellular Component

GO:0009506 plasmodesma Cellular Component

KEGG gene cross-reference

ath:AT2G46170

ath:AT3G10260

ath:AT3G61560

ath:AT4G11220

ath:AT4G23630

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 reticulum0.615

Rank 1 · LXL04_025647 · OH-1004

Cell membrane0.165

Rank 2 · LXL04_025647 · OH-1004

Cytoplasm0.154

Rank 3 · LXL04_025647 · OH-1004

Golgi apparatus0.123

Rank 4 · LXL04_025647 · OH-1004

Nucleus0.096

Rank 5 · LXL04_025647 · 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.

PF02453.24Reticulon63-211 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_025647	`PF02453.24`	Reticulon	63	211	3.3e-44	151.3

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.

Download current result

Protein	Organism	Description	Identity	Database	Confidence
`Q9SS37`	Arabidopsis thaliana	Reticulon-like protein B8	48.963%	Swiss-Prot	moderate database homology
`O82352`	Arabidopsis thaliana	Reticulon-like protein B5	37.759%	Swiss-Prot	moderate database homology
`Q6DBN4`	Arabidopsis thaliana	Reticulon-like protein B6	39.048%	Swiss-Prot	moderate database homology
`Q9SUT9`	Arabidopsis thaliana	Reticulon-like protein B2	38.462%	Swiss-Prot	moderate database homology
`Q9SUR3`	Arabidopsis thaliana	Reticulon-like protein B1	39.175%	Swiss-Prot	moderate database homology

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