TkA01G537970 | RubberDandelionOmics

Gene overview

TkA01G537970

Reference: TK1151 Chr: Chr01 Coordinates: 134908458-134912897 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

2246 bp · TkA01G537970|TK1151|cDNA

TTCTCTTCATTTGAAAACTACTTAAAACTCTACCTCCCTCCCTCCCTCCCTCTCCACTCTAAATCCCTTAACACTTCCGTATTAATTTTCATCTTTGATATATATTGCATGGGTAGTTTGGTACATAACAACGGAATATGTCCGGAACCAGATGAAGAAGCAGAATGGTGTATCCAAATGGCGGAGTCGTCGGAATCAAGTAAAATAAAGAAAAGAGGCGGCGGAGCCTACTTGACATGGGAGAATCTTGGAGTCGCTGT...

CDS

Download CDS FASTA

2070 bp · TkA01G537970|TK1151|CDS

TTCTCTTCATTTGAAAACTACTTAAAACTCTACCTCCCTCCCTCCCTCCCTCTCCACTCTAAATCCCTTAACACTTCCGTATTAATTTTCATCTTTGATATATATTGCATGGGTAGTTTGGTACATAACAACGGAATATGTCCGGAACCAGATGAAGAAGCAGAATGGTGTATCCAAATGGCGGAGTCGTCGGAATCAAGTAAAATAAAGAAAAGAGGCGGCGGAGCCTACTTGACATGGGAGAATCTTGGAGTCGCTGT...

Protein

Download Protein FASTA

689 aa · TkA01G537970|TK1151|PROTEIN

FSSFENYLKLYLPPSLPLHSKSLNTSVLIFIFDIYCMGSLVHNNGICPEPDEEAEWCIQMAESSESSKIKKRGGGAYLTWENLGVAVSSSNGNTGKDGSKSILAGATGYAKPGEILAIMGPSGCGKSTLLDSLAGRLASNTKQTGRILINGRKTRPTYGTMAYMTQEQALTWTLTVKETVYYSAELQLPKLMSKAEKRDRADRIIRDMGLQDAINTRIGGWGTKGLSGGQKQRLSICLQLLTHPKLLLVDEPTSGLDSAA...

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	`TkA01G537970`
TK1151 ID	TkA01G537970
OH-1004 ID	LXL04_001429
Relationship / confidence	Non Reciprocal Best Hit / Complex relationship
Protein identity (%)	73.200
Protein coverage (%)	TK1151 94.485 / OH-1004 99.388 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

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Basic Information and Functional Annotation

Gene ID TkA01G537970

Location Chr01:134908458-134912897 (+)

Description Similar to ABCG15: ABC transporter G family member 15

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At1g17840`	Required for the cuticle, root suberin and pollen coat development by controlling cutin and maybe wax transport to the extracellular matrix.	Characterization of Arabidopsis ABCG11/WBC11, an ATP binding cassette (ABC) transporter that is required for cuticular lipid secretion.2007 · DOI: 10.1111/j.1365-313x.2007.03252.x The Arabidopsis DESPERADO/AtWBC11 transporter is required for cutin and wax secretion.2007 · DOI: 10.1104/pp.107.105676 Cytological and biochemical analysis of COF1, an Arabidopsis mutant of an ABC transporter gene.2007 · DOI: 10.1093/pcp/pcm139 An ABC transporter gene of Arabidopsis thaliana, AtWBC11, is involved in cuticle development and prevention of organ fusion.2007 · DOI: 10.1093/pcp/pcm152 The Arabidopsis DSO/ABCG11 transporter affects cutin metabolism in reproductive organs and suberin in roots.2010 · DOI: 10.1093/mp/ssp103 ABCG9, ABCG11 and ABCG14 ABC transporters are required for vascular development in Arabidopsis.2013 · DOI: 10.1111/tpj.12334 Expression analysis of transporter genes for screening candidate monolignol transporters using Arabidopsis thaliana cell suspensions during tracheary element differentiation.2018 · DOI: 10.1007/s10265-017-0979-4
`At3g21090`	ABC transporter G family member 15.	No verified direct reference in this release
`At1g51500`	Involved in the secretion of cuticular wax from epidermal cells to the cuticle, especially in the transport of aldehydes, alcohols and acids.	Cuticular waxes on eceriferum mutants of Arabidopsis thaliana.2001 · DOI: 10.1016/s0031-9422(00)00513-6 Plant cuticular lipid export requires an ABC transporter.2004 · DOI: 10.1126/science.1102331 Wax and cutin mutants of Arabidopsis: Quantitative characterization of the cuticular transport barrier in relation to chemical composition.2016 · DOI: 10.1016/j.bbalip.2016.03.002 The effects of surface structure mutations in Arabidopsis thaliana on the polarization of reflections from virus-infected leaves.2017 · DOI: 10.1371/journal.pone.0174014
`At1g51460`	ABC transporter G family member 13.	No verified direct reference in this release

Rice

No hit for this species in the current source table.

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_001429 · 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:0006869 lipid transport Biological Process

GO:0009611 response to wounding Biological Process

GO:0009651 response to salt stress Biological Process

GO:0009737 response to abscisic acid Biological Process

GO:0010025 wax biosynthetic process Biological Process

GO:0010222 stem vascular tissue pattern formation Biological Process

GO:0010345 suberin biosynthetic process Biological Process

GO:0010588 cotyledon vascular tissue pattern formation Biological Process

GO:0010597 green leaf volatile biosynthetic process Biological Process

GO:0015908 fatty acid transport Biological Process

GO:0051607 defense response to virus Biological Process

GO:0055085 transmembrane transport Biological Process

KEGG gene cross-reference

ath:AT1G17840

ath:AT1G51460

ath:AT1G51500

ath:AT3G21090

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.

Cell membrane0.493

Rank 1 · TkA01G537970 · TK1151

Lysosome / Vacuole0.195

Rank 2 · TkA01G537970 · TK1151

Endoplasmic reticulum0.173

Rank 3 · TkA01G537970 · TK1151

Cytoplasm0.157

Rank 4 · TkA01G537970 · TK1151

Golgi apparatus0.111

Rank 5 · TkA01G537970 · 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.

PF13481AAA_25108-174 aa

PF00005ABC_tran109-254 aa

PF03215Rad17111-143 aa

PF25199nSTAND_NTPase5112-200 aa

PF01637ATPase_2112-142 aa

PF03193RsgA_GTPase113-154 aa

PF02463SMC_N114-281 aa

PF13401AAA_22114-152 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
TkA01G537970	`PF13481`	AAA_25	108	174	0.0042	17.5
TkA01G537970	`PF00005`	ABC_tran	109	254	2.3e-28	100.2
TkA01G537970	`PF03215`	Rad17	111	143	0.00092	19.9
TkA01G537970	`PF25199`	nSTAND_NTPase5	112	200	0.0067	17.0
TkA01G537970	`PF01637`	ATPase_2	112	142	0.023	15.3
TkA01G537970	`PF03193`	RsgA_GTPase	113	154	2.8e-05	24.7
TkA01G537970	`PF02463`	SMC_N	114	281	0.00065	19.9
TkA01G537970	`PF13401`	AAA_22	114	152	0.0057	17.7
TkA01G537970	`PF13191`	AAA_16	114	146	0.021	16.1
TkA01G537970	`PF13173`	AAA_14	114	142	0.059	14.1
TkA01G537970	`PF24883`	NPHP3_N	114	148	0.059	14.3
TkA01G537970	`PF20703`	nSTAND1	114	147	0.096	13.0
TkA01G537970	`PF00931`	NB-ARC	114	133	0.3	11.3
TkA01G537970	`PF13555`	AAA_29	115	141	0.00048	20.6
TkA01G537970	`PF13476`	AAA_23	115	146	0.028	15.8
TkA01G537970	`PF20720`	nSTAND3	115	141	0.23	11.9

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
`Q8RXN0`	Arabidopsis thaliana	sp\|Q8RXN0\|AB11G_ARATH ABC transporter G family member 11	47.800%	Swiss-Prot	Medium
`Q8RWI9`	Arabidopsis thaliana	sp\|Q8RWI9\|AB15G_ARATH ABC transporter G family member 15	45.100%	Swiss-Prot	Medium
`Q9C8K2`	Arabidopsis thaliana	sp\|Q9C8K2\|AB12G_ARATH ABC transporter G family member 12	44.700%	Swiss-Prot	Medium
`Q9C8J8`	Arabidopsis thaliana	sp\|Q9C8J8\|AB13G_ARATH ABC transporter G family member 13	43.000%	Swiss-Prot	Medium

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