TkA03G238660 | RubberDandelionOmics

Gene overview

TkA03G238660

Reference: TK1151 Chr: Chr03 Coordinates: 59359485-59378073 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

2823 bp · TkA03G238660|TK1151|cDNA

CATTGGGATGCTCTGTTCAGTTTGAGTCAAACAGAAAGTGATCAAAGGCTGTTGGAATGCCTTGTGCTTAACCTTTGTGATCATCCTTGCTGGTCCTATTGCCAAGGGTTTTCTGACATGGTTTTATTAATGGACAACATGGTTGATATGCTTTCTGATGTTAAGCTTCAGCCAACTAAGATCCTGACCGCTATATGTGGCCTGTTGCATACATTAAAATCAAACAAAGGTACAAAAGAAAAGAATCTCAGTCATTCTAT...

CDS

Download CDS FASTA

2823 bp · TkA03G238660|TK1151|CDS

CATTGGGATGCTCTGTTCAGTTTGAGTCAAACAGAAAGTGATCAAAGGCTGTTGGAATGCCTTGTGCTTAACCTTTGTGATCATCCTTGCTGGTCCTATTGCCAAGGGTTTTCTGACATGGTTTTATTAATGGACAACATGGTTGATATGCTTTCTGATGTTAAGCTTCAGCCAACTAAGATCCTGACCGCTATATGTGGCCTGTTGCATACATTAAAATCAAACAAAGGTACAAAAGAAAAGAATCTCAGTCATTCTAT...

Protein

Download Protein FASTA

940 aa · TkA03G238660|TK1151|PROTEIN

HWDALFSLSQTESDQRLLECLVLNLCDHPCWSYCQGFSDMVLLMDNMVDMLSDVKLQPTKILTAICGLLHTLKSNKGTKEKNLSHSISEQGFEMGIALPSFLLNIEVASGGIVLRWIVGVCLSFKIFKVYWKLKNIKQEHAKFWKQHPALVKHDFKRVVELASRLLQELMKATVLDPADYTGLEAALDNHKVSLYFTESPTNPFLRCVDIELVSKMCHEKGAIVCIDGTFATPLNQKALALGADIVFYSATKNSPCMIGR...

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	`TkA03G238660`
TK1151 ID	TkA03G238660
OH-1004 ID	LXL04_007906
Relationship / confidence	Rbh Below Probable Coverage Or Synteny Threshold / Review
Protein identity (%)	81.200
Protein coverage (%)	TK1151 100.000 / OH-1004 98.545 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

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SNP / Indel variants and carrier samplesCRA009020 · TK1151

Expand to load variant records for this gene.

Basic Information and Functional Annotation

Gene ID TkA03G238660

Location Chr03:59359485-59378073 (-)

Description Similar to BIG: Auxin transport protein BIG

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At3g02260`	Required for auxin efflux and polar auxin transport (PAT) influencing auxin-mediated developmental responses (e.g. cell elongation, apical dominance, lateral root production, inflorescence architecture, general growth and development).	BIG: a calossin-like protein required for polar auxin transport in Arabidopsis.2001 · DOI: 10.1101/gad.905201 Mutations in the huge Arabidopsis gene BIG affect a range of hormone and light responses.2003 · DOI: 10.1046/j.1365-313x.2003.01779.x The auxin transport inhibitor response 3 (tir3) allele of BIG and auxin transport inhibitors affect the gibberellin status of Arabidopsis.2005 · DOI: 10.1111/j.1365-313x.2004.02287.x CRM1/BIG-mediated auxin action regulates Arabidopsis inflorescence development.2007 · DOI: 10.1093/pcp/pcm094 Arabidopsis mutants define downstream branches in the phototransduction pathway.1994 · DOI: 10.1101/gad.8.3.339 Reduced naphthylphthalamic acid binding in the tir3 mutant of Arabidopsis is associated with a reduction in polar auxin transport and diverse morphological defects.1997 · DOI: 10.1105/tpc.9.5.745
`At3g01120`	Catalyzes the first committed step of methionine (Met) biosynthesis.	No verified direct reference in this release
`At1g33320`	Catalyzes the first committed step of methionine (Met) biosynthesis.	No verified direct reference in this release

Rice

Reference gene ID	Possible function	Papers / DOI
`Os09g0247700`	Required for auxin efflux and polar auxin transport (PAT) influencing auxin-mediated developmental responses (e.g. cell elongation, apical dominance, lateral root production, inflorescence architecture, general growth and development) (By similarity).	No verified direct reference in this release

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_007906 · 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:0001887 selenium compound metabolic process Biological Process

GO:0009086 methionine biosynthetic process Biological Process

GO:0009620 response to fungus Biological Process

GO:0009640 photomorphogenesis Biological Process

GO:0009733 response to auxin Biological Process

GO:0009734 auxin-activated signaling pathway Biological Process

GO:0009826 unidimensional cell growth Biological Process

GO:0009926 auxin polar transport Biological Process

GO:0010311 lateral root formation Biological Process

GO:0019346 transsulfuration Biological Process

GO:0048281 inflorescence morphogenesis Biological Process

GO:0048364 root development Biological Process

KEGG gene cross-reference

ath:AT3G01120

ath:AT3G02260

nta:107822634

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.

Cytoplasm0.345

Rank 1 · TkA03G238660 · TK1151

Nucleus0.316

Rank 2 · TkA03G238660 · TK1151

Mitochondrion0.137

Rank 3 · TkA03G238660 · TK1151

Cell membrane0.125

Rank 4 · TkA03G238660 · TK1151

Endoplasmic reticulum0.121

Rank 5 · TkA03G238660 · 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.

PF01053Cys_Met_Meta_PP167-252 aa

PF00266Aminotran_5207-253 aa

PF25598ARM_PUB516-576 aa

PF30838UBR4_TPR519-581 aa

PF30838UBR4_TPR592-622 aa

PF30838UBR4_TPR680-714 aa

PF30837UBR4_Ub797-866 aa

PF30838UBR4_TPR902-920 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
TkA03G238660	`PF01053`	Cys_Met_Meta_PP	167	252	3.9e-23	82.3
TkA03G238660	`PF00266`	Aminotran_5	207	253	0.32	10.6
TkA03G238660	`PF25598`	ARM_PUB	516	576	0.17	12.0
TkA03G238660	`PF30838`	UBR4_TPR	519	581	1.4e-29	104.0
TkA03G238660	`PF30838`	UBR4_TPR	592	622	1.4e-29	104.0
TkA03G238660	`PF30838`	UBR4_TPR	680	714	1.4e-29	104.0
TkA03G238660	`PF30837`	UBR4_Ub	797	866	6.9e-10	39.5
TkA03G238660	`PF30838`	UBR4_TPR	902	920	1.4e-29	104.0

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.

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Protein	Organism	Description	Identity	Database	Confidence
`Q9SRU2`	Arabidopsis thaliana	sp\|Q9SRU2\|BIG_ARATH Auxin transport protein BIG	42.500%	Swiss-Prot	Low
`P55217`	Arabidopsis thaliana	sp\|P55217\|CGS1_ARATH Cystathionine gamma-synthase 1, chloroplastic	80.000%	Swiss-Prot	Low
`Q9C876`	Arabidopsis thaliana	sp\|Q9C876\|CGS2_ARATH Probable cystathionine gamma-synthase 2	67.500%	Swiss-Prot	Low
`B9G2A8`	Oryza sativa subsp. japonica	sp\|B9G2A8\|BIG_ORYSJ Auxin transport protein BIG	38.300%	Swiss-Prot	Low

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