TkA04G462490 | RubberDandelionOmics

Gene overview

TkA04G462490

Reference: TK1151 Chr: Chr04 Coordinates: 116713081-116723095 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

2088 bp · TkA04G462490|TK1151|cDNA

ATGCCGCCTAATATCACTTCCATATCCGAACCATCGCCGGATTCCTTCGAGGATTTCACCAACATGGCGGATCCATTGACAGCTTTGATGTACGCAGTCCAAGTAATGAAGTTTCTGAAAACCCTAGTAACAAAAACTCTCCGTGAAAGAGAAGATAATTTGGTTGAGGAGCCGTCTGCTAGTCCACCAGAGAGGTCGCCGGATGAGAACGGCCGCCATGGGCCGCCGCGTCTCCGCCATAGTGGAGGTGAAGAGATAGA...

CDS

Download CDS FASTA

2088 bp · TkA04G462490|TK1151|CDS

ATGCCGCCTAATATCACTTCCATATCCGAACCATCGCCGGATTCCTTCGAGGATTTCACCAACATGGCGGATCCATTGACAGCTTTGATGTACGCAGTCCAAGTAATGAAGTTTCTGAAAACCCTAGTAACAAAAACTCTCCGTGAAAGAGAAGATAATTTGGTTGAGGAGCCGTCTGCTAGTCCACCAGAGAGGTCGCCGGATGAGAACGGCCGCCATGGGCCGCCGCGTCTCCGCCATAGTGGAGGTGAAGAGATAGA...

Protein

Download Protein FASTA

695 aa · TkA04G462490|TK1151|PROTEIN

MPPNITSISEPSPDSFEDFTNMADPLTALMYAVQVMKFLKTLVTKTLREREDNLVEEPSASPPERSPDENGRHGPPRLRHSGGEEIEKELNSSGGSDSVFDGSRKEQGSWESELDEFADGEDWDVAVIGEWWRSEKDDGKICTVLSSKQGGRQGFDQFGGLTFTLKAMPEEKSLTITNNSSDQKTPHVLTVAGSDSGAGAGIQADLKACAARGVYCSTVITAVTAQNTLGVQDVSILSEESVAAQLKSVLSDMRVDVVKT...

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	`TkA04G462490`
TK1151 ID	TkA04G462490
OH-1004 ID	LXL04_014322
Relationship / confidence	Multi Source To Oh1004 / Complex relationship
Protein identity (%)	82.500
Protein coverage (%)	TK1151 13.957 / OH-1004 21.262 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 TkA04G462490

Location Chr04:116713081-116723095 (+)

Description Similar to ROPGAP1: Rho GTPase-activating protein 1

Arabidopsis / Rice Reference Genes and Papers

Download references for this gene

Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At1g22940`	Essential for thiamine biosynthesis.	No verified direct reference in this release
`At5g22400`	Acts as a GTPase activator for the Rac-type GTPase by converting it to an inactive GDP-bound state.	No verified direct reference in this release
`At4g03100`	Acts as a GTPase activator for the Rac-type GTPase by converting it to an inactive GDP-bound state.	No verified direct reference in this release
`At3g11490`	Acts as a GTPase activator for the Rac-type GTPase by converting it to an inactive GDP-bound state.	RopGAP4-dependent Rop GTPase rheostat control of Arabidopsis oxygen deprivation tolerance.2002 · DOI: 10.1126/science.1071505
`At1g08340`	Acts as a GTPase activator for the Rac-type GTPase by converting it to an inactive GDP-bound state.	No verified direct reference in this release

Rice

Reference gene ID	Possible function	Papers / DOI
`Os12g0192500`	Essential for thiamine biosynthesis.	No verified direct reference in this release

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_014322 · 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:0007165 signal transduction Biological Process

GO:0009664 plant-type cell wall organization Biological Process

GO:0034059 response to anoxia Biological Process

GO:0005737 cytoplasm Cellular Component

GO:0005886 plasma membrane Cellular Component

GO:0009507 chloroplast Cellular Component

GO:0009531 secondary cell wall Cellular Component

GO:0005096 GTPase activator activity Molecular Function

KEGG gene cross-reference

ath:AT1G08340

ath:AT2G46710

ath:AT3G11490

ath:AT4G03100

ath:AT5G22400

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.

Cytoplasm0.372

Rank 1 · TkA04G462490 · TK1151

Nucleus0.196

Rank 2 · TkA04G462490 · TK1151

Mitochondrion0.166

Rank 3 · TkA04G462490 · TK1151

Endoplasmic reticulum0.127

Rank 4 · TkA04G462490 · TK1151

Plastid0.115

Rank 5 · TkA04G462490 · 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.

PF01256Carb_kinase189-425 aa

PF08543Phos_pyr_kin195-439 aa

PF03060NMO200-268 aa

PF00294PfkB309-421 aa

PF02581TMP-TENI469-669 aa

PF03060NMO548-668 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
TkA04G462490	`PF01256`	Carb_kinase	189	425	0.0042	17.3
TkA04G462490	`PF08543`	Phos_pyr_kin	195	439	3.8e-88	295.8
TkA04G462490	`PF03060`	NMO	200	268	0.064	13.4
TkA04G462490	`PF00294`	PfkB	309	421	1.8e-10	41.4
TkA04G462490	`PF02581`	TMP-TENI	469	669	4.1e-59	199.7
TkA04G462490	`PF03060`	NMO	548	668	0.064	13.4

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
`Q5M731`	Arabidopsis thaliana	sp\|Q5M731\|TPS1L_ARATH Thiamine biosynthetic bifunctional enzyme TH1, chloroplastic	72.300%	Swiss-Prot	High
`Q9FMR1`	Arabidopsis thaliana	sp\|Q9FMR1\|RGAP1_ARATH Rho GTPase-activating protein 1	44.500%	Swiss-Prot	Medium
`F4JI46`	Arabidopsis thaliana	sp\|F4JI46\|RGAP2_ARATH Rho GTPase-activating protein 2	71.000%	Swiss-Prot	Low
`Q9CAX8`	Arabidopsis thaliana	sp\|Q9CAX8\|RGAP4_ARATH Rho GTPase-activating protein 4	64.600%	Swiss-Prot	Low
`Q6NKT5`	Arabidopsis thaliana	sp\|Q6NKT5\|RGAP5_ARATH Rho GTPase-activating protein 5	75.900%	Swiss-Prot	Low
`Q2QWK9`	Oryza sativa subsp. japonica	sp\|Q2QWK9\|TPS1_ORYSJ Probable thiamine biosynthetic bifunctional enzyme, chloroplastic	68.700%	Swiss-Prot	High

JBrowse

View in Genome Browser

Gene Card