TkA01G556980 | RubberDandelionOmics

Gene overview

TkA01G556980

Reference: TK1151 Chr: Chr01 Coordinates: 140040166-140040658 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

411 bp · TkA01G556980|TK1151|cDNA

ATGACCCAACTGAAGCCAATTCTCTCTCACGTCGATAACATCCCGTCGACCACCGGAAAATTCAAACCCGACAAATCTTCTCTCTATTACATCCACTATCGTCTCCGACATGGCGTATTTCTTCTTCACCAAAGACATCTTAAATCGGAAAAAAATTCCATCTTCGAAGGACCCAATCACGGAACTATCGCTAGGGATTTCACCTACATCGATGATATTGTCAATGGCTGTTTATCGGCGATCGATACAGCAAAAAAGAG...

CDS

Download CDS FASTA

411 bp · TkA01G556980|TK1151|CDS

ATGACCCAACTGAAGCCAATTCTCTCTCACGTCGATAACATCCCGTCGACCACCGGAAAATTCAAACCCGACAAATCTTCTCTCTATTACATCCACTATCGTCTCCGACATGGCGTATTTCTTCTTCACCAAAGACATCTTAAATCGGAAAAAAATTCCATCTTCGAAGGACCCAATCACGGAACTATCGCTAGGGATTTCACCTACATCGATGATATTGTCAATGGCTGTTTATCGGCGATCGATACAGCAAAAAAGAG...

Protein

Download Protein FASTA

136 aa · TkA01G556980|TK1151|PROTEIN

MTQLKPILSHVDNIPSTTGKFKPDKSSLYYIHYRLRHGVFLLHQRHLKSEKNSIFEGPNHGTIARDFTYIDDIVNGCLSAIDTAKKSTGTGGKKKGEAQFRIINLGNTSPVSVYKLVNILEKLLKVKARKKMVLMP

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	`TkA01G556980`
TK1151 ID	TkA01G556980
OH-1004 ID	LXL04_001166
Relationship / confidence	Rbh Below Probable Coverage Or Synteny Threshold / Review
Protein identity (%)	88.600
Protein coverage (%)	TK1151 97.059 / OH-1004 67.010 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 TkA01G556980

Location Chr01:140040166-140040658 (-)

Description Similar to GAE2: UDP-glucuronate 4-epimerase 2

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At1g02000`	Involved in the synthesis of the negatively charged monosaccharide that forms the backbone of pectic cell wall components.	No verified direct reference in this release
`At4g00110`	Involved in the synthesis of the negatively charged monosaccharide that forms the backbone of pectic cell wall components.	No verified direct reference in this release
`At2g45310`	Involved in the synthesis of the negatively charged monosaccharide that forms the backbone of pectic cell wall components.	No verified direct reference in this release
`At4g12250`	Involved in the synthesis of the negatively charged monosaccharide that forms the backbone of pectic cell wall components.	No verified direct reference in this release
`At4g30440`	UDP-D-glucuronate 4-epimerase involved in the synthesis of the negatively charged monosaccharide that forms the backbone of pectic cell wall components.	The biosynthesis of D-Galacturonate in plants. functional cloning and characterization of a membrane-anchored UDP-D-Glucuronate 4-epimerase from Arabidopsis.2004 · DOI: 10.1104/pp.104.043745

Rice

No hit for this species in the current source table.

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_001166 · 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:0033481 galacturonate biosynthetic process Biological Process

GO:0050829 defense response to Gram-negative bacterium Biological Process

GO:0050832 defense response to fungus Biological Process

GO:0000138 Golgi trans cisterna Cellular Component

GO:0005768 endosome Cellular Component

GO:0005794 Golgi apparatus Cellular Component

GO:0005797 Golgi medial cisterna Cellular Component

GO:0005802 trans-Golgi network Cellular Component

GO:0016020 membrane Cellular Component

GO:0032580 Golgi cisterna membrane Cellular Component

GO:0016854 racemase and epimerase activity Molecular Function

GO:0050378 UDP-glucuronate 4-epimerase activity Molecular Function

KEGG gene cross-reference

ath:AT1G02000

ath:AT2G45310

ath:AT3G23820

ath:AT4G00110

ath:AT4G12250

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.

Cytoplasm0.210

Rank 1 · TkA01G556980 · TK1151

Mitochondrion0.178

Rank 2 · TkA01G556980 · TK1151

Peroxisome0.167

Rank 3 · TkA01G556980 · TK1151

Nucleus0.131

Rank 4 · TkA01G556980 · TK1151

Extracellular0.126

Rank 5 · TkA01G556980 · 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.

PF01370Epimerase59-86 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
TkA01G556980	`PF01370`	Epimerase	59	86	0.019	15.1

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
`Q9LPC1`	Arabidopsis thaliana	sp\|Q9LPC1\|GAE2_ARATH UDP-glucuronate 4-epimerase 2	70.000%	Swiss-Prot	Medium
`O81312`	Arabidopsis thaliana	sp\|O81312\|GAE3_ARATH UDP-glucuronate 4-epimerase 3	68.900%	Swiss-Prot	Medium
`O22141`	Arabidopsis thaliana	sp\|O22141\|GAE4_ARATH UDP-glucuronate 4-epimerase 4	68.900%	Swiss-Prot	Medium
`Q9STI6`	Arabidopsis thaliana	sp\|Q9STI6\|GAE5_ARATH UDP-glucuronate 4-epimerase 5	68.900%	Swiss-Prot	Medium
`Q9M0B6`	Arabidopsis thaliana	sp\|Q9M0B6\|GAE1_ARATH UDP-glucuronate 4-epimerase 1	60.000%	Swiss-Prot	Medium

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