TkA01G541540 | RubberDandelionOmics

Gene overview

TkA01G541540

Reference: TK1151 Chr: Chr01 Coordinates: 135852620-135854515 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1680 bp · TkA01G541540|TK1151|cDNA

CTTTTGTATTCCATTTAAGCAAAAACATCCCTCCTCTTCTTCATAAATATGGTGTAAGAAGGCTTCGCTAGGGTTCCTCTTTTCCCTCTAACTTTGGAAATATCATCCAGGATTCCAGTTGTTACAGTGAGTATGAACACTCTTGAATTGCATGTGTTCTTCTGAGTGATTGAGGGTTTTCTCTGTAATCGAAAAACAGCAGAGAAATTTTAATTTTGCTGAAATGCCGACGACAAGTGGTTACACGATGCCGTTCGGAA...

CDS

Download CDS FASTA

1197 bp · TkA01G541540|TK1151|CDS

ATGCCGACGACAAGTGGTTACACGATGCCGTTCGGAACCTTTCGCCGATCAATTATGGGCATTGCAAACGATCACAATCAAGTTCATTCCATGGATGTAAACAGCGATTCCAGTTCCGAATCCCATTGTGAACTCGGTTCATTCGAGCACCAAGTCTTCCGCCAATTCCGTACACTTTCAGCAGCTTCTCCCGATGAACTACTTTCTCTCAATTGGGTATCAAAATTACTCGATGCTTTCATAGCTTGTGAAGAAGATTT...

Protein

Download Protein FASTA

398 aa · TkA01G541540|TK1151|PROTEIN

MPTTSGYTMPFGTFRRSIMGIANDHNQVHSMDVNSDSSSESHCELGSFEHQVFRQFRTLSAASPDELLSLNWVSKLLDAFIACEEDFRSILSTNEANLSKPPLDKFLTEFYDRGIRALDICNAIRDGTEKIRLWHKHLEIVSTAFDSKPRNMMIEGQFRRAKKALTDLAIIMLDENKDSSSVFSTRNRSFGRPNKANKDNQQKAGHSRSLSWSVPNSWSASKQLQSIANGLVPPRPHEISATNGLATIVYTMGFVLFFVL...

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	`TkA01G541540`
TK1151 ID	TkA01G541540
OH-1004 ID	LXL04_017028
Relationship / confidence	Multi Source To Oh1004 / Complex relationship
Protein identity (%)	66.200
Protein coverage (%)	TK1151 97.739 / OH-1004 99.487 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	TK1151 / GWHBCHF00000000

Open Full ID Mapping

SNP / Indel variants and carrier samplesCRA009020 · TK1151

Expand to load variant records for this gene.

Basic Information and Functional Annotation

Gene ID TkA01G541540

Location Chr01:135852620-135854515 (+)

Description Similar to ROH1: Protein ROH1

Arabidopsis / Rice Reference Genes and Papers

Download references for this gene

Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`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
`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
`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

Rice

No hit for this species in the current source table.

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_017028 · GCA_047496595.1_OSU_TarKok_2.0. These OH1004 annotations are retrieved through ID mapping; the Arabidopsis/rice table below uses protein alignments from the query reference.

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.

Cytoplasm0.565

Rank 1 · TkA01G541540 · TK1151

Nucleus0.356

Rank 2 · TkA01G541540 · TK1151

Cell membrane0.279

Rank 3 · TkA01G541540 · TK1151

Endoplasmic reticulum0.048

Rank 4 · TkA01G541540 · TK1151

Golgi apparatus0.030

Rank 5 · TkA01G541540 · TK1151

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.

PF05633ROH1-like14-389 aa

PF03087BPS195-138 aa

PF17309DUF5356170-203 aa

PF17309DUF5356304-351 aa

PF03087BPS1311-382 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
TkA01G541540	`PF05633`	ROH1-like	14	389	1.3e-121	407.0
TkA01G541540	`PF03087`	BPS1	95	138	0.0019	18.7
TkA01G541540	`PF17309`	DUF5356	170	203	0.12	13.7
TkA01G541540	`PF17309`	DUF5356	304	351	0.12	13.7
TkA01G541540	`PF03087`	BPS1	311	382	0.0019	18.7

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
`Q9CA69`	Arabidopsis thaliana	sp\|Q9CA69\|ROH1D_ARATH Protein ROH1D	47.800%	Swiss-Prot	Medium
`Q9M9U5`	Arabidopsis thaliana	sp\|Q9M9U5\|B1L_ARATH Protein BYPASS1-LIKE	48.600%	Swiss-Prot	Medium
`Q9CAK4`	Arabidopsis thaliana	sp\|Q9CAK4\|ROH1A_ARATH Protein ROH1A	34.500%	Swiss-Prot	Medium

JBrowse

View in Genome Browser

Gene Card