LXL04_026407 | RubberDandelionOmics

Gene overview

LXL04_026407

Reference: OH-1004 Chr: Chr05 Coordinates: 125868958-125870100 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1143 bp · LXL04_026407|LXL04_026407|OH1004|cDNA

ATGCCGGCGACGGACAACCAAGGATCTTTTCTCAACCGTATAAGCATCCGGCGTAATCAGGTAGTCTACGAGCATGAGGTCGAAGACCTTGAACAATTTCAGAGACATGTCACCGATCGCCTCGCCGAACTCTTCCACCTTCCCGGAGAAGATGCCGCCGCCTCCAGTGATCCGCCGGAAGTACTCTTATCCATCGCCTGGTTTCGTAAACTTCTCGATGCATTTCTGTGCTGCGAGGCGGAATTCAAGGCGGTTGTGAT...

CDS

Download CDS FASTA

1143 bp · LXL04_026407|LXL04_026407|OH1004|CDS

ATGCCGGCGACGGACAACCAAGGATCTTTTCTCAACCGTATAAGCATCCGGCGTAATCAGGTAGTCTACGAGCATGAGGTCGAAGACCTTGAACAATTTCAGAGACATGTCACCGATCGCCTCGCCGAACTCTTCCACCTTCCCGGAGAAGATGCCGCCGCCTCCAGTGATCCGCCGGAAGTACTCTTATCCATCGCCTGGTTTCGTAAACTTCTCGATGCATTTCTGTGCTGCGAGGCGGAATTCAAGGCGGTTGTGAT...

Protein

Download Protein FASTA

380 aa · LXL04_026407|LXL04_026407|OH1004|PROTEIN

MPATDNQGSFLNRISIRRNQVVYEHEVEDLEQFQRHVTDRLAELFHLPGEDAAASSDPPEVLLSIAWFRKLLDAFLCCEAEFKAVVIMGRDAANFAKSPLDRLIPEHLDRTIKALDICNAITHGIDLLIHWQKLAMIAVDSLQARPIIEGNVERAKKALNTLLSSITTDDKENHHHKASKDLETIGNLKSLSYPFAKSWSASKQIQAMSSNLAAPRGGEPTGLVVPVYLMSSVLVFVMWVMVAAIPCQERTGLGAHLQIP...

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_026407`
TK1151 ID	TkA01G037650
OH-1004 ID	LXL04_026407
Relationship / confidence	Rbh Below Probable Coverage Or Synteny Threshold / Review
Protein identity (%)	60.300
Protein coverage (%)	TK1151 98.950 / OH-1004 93.947 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_026407

Location Chr05:125868958-125870100 (+)

Description Similar to ROH1: Protein ROH1

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At1g63930`	Required for seed coat mucilage deposition.	Arabidopsis exocyst subunits SEC8 and EXO70A1 and exocyst interactor ROH1 are involved in the localized deposition of seed coat pectin.2010 · DOI: 10.1111/j.1469-8137.2010.03372.x
`At1g18740`	Together with TRANSTHYRETIN-LIKE protein (TTL), prevents plant growth and development, but by opposition to TTL, regulates positively cold tolerance, probably in a brassinosteroid (BR) and allantoin-dependent manner.	No verified direct reference in this release
`At1g74450`	Involved in the regulation of plant growth, and modulates pollen development to ensure male fertility.	Overexpressing the Multiple-Stress Responsive Gene At1g74450 Reduces Plant Height and Male Fertility in Arabidopsis thaliana.2015 · DOI: 10.1371/journal.pone.0140368

Rice

No hit for this species in the current source table.

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_026407 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0006887 exocytosis Biological Process

GO:0006904 vesicle docking involved in exocytosis Biological Process

GO:0009409 response to cold Biological Process

GO:0009555 pollen development Biological Process

GO:0009631 cold acclimation Biological Process

GO:0009734 auxin-activated signaling pathway Biological Process

GO:0009741 response to brassinosteroid Biological Process

GO:0009742 brassinosteroid mediated signaling pathway Biological Process

GO:0010214 seed coat development Biological Process

GO:0016192 vesicle-mediated transport Biological Process

GO:0019428 allantoin biosynthetic process Biological Process

GO:0040008 regulation of growth Biological Process

KEGG gene cross-reference

ath:AT1G18740

ath:AT1G63930

ath:AT1G74450

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.

Cytoplasm0.581

Rank 1 · LXL04_026407 · OH-1004

Nucleus0.346

Rank 2 · LXL04_026407 · OH-1004

Cell membrane0.257

Rank 3 · LXL04_026407 · OH-1004

Endoplasmic reticulum0.059

Rank 4 · LXL04_026407 · OH-1004

Golgi apparatus0.033

Rank 5 · LXL04_026407 · 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.

PF05633.17ROH1-like1-367 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_026407	`PF05633.17`	ROH1-like	1	367	6.2e-134	447.5

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
`Q9CAK4`	Arabidopsis thaliana	Protein ROH1A	50.485%	Swiss-Prot	strong database homology
`Q9M9U5`	Arabidopsis thaliana	Protein BYPASS1-LIKE	42.965%	Swiss-Prot	moderate database homology
`Q9CA69`	Arabidopsis thaliana	Protein ROH1D	37.470%	Swiss-Prot	moderate database homology

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