TkA07G398940 | RubberDandelionOmics

Gene overview

TkA07G398940

Reference: TK1151 Chr: Chr07 Coordinates: 100232498-100235135 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

2453 bp · TkA07G398940|TK1151|cDNA

GCACAATATAGATATACAAGTTATTTCTTGTTCAAGTATATAATTGTGAAAGAGATGAAGGTCTATTGCTAATTGGCAAATATATATTTTGGTTTTCAACAGAAGAAAACCCAAACAATAACAAATCGACACTTGGAGCCTTCCAACTGCTACTTGTTTCTTTGATTAAAATTCATTTCTAATCTCTTGTCATCCCCTCTATATCTTGATCATATATTGAGTAGACAAAATTTGAAAATAGGCTAAAAAACACTTCAATT...

CDS

Download CDS FASTA

1596 bp · TkA07G398940|TK1151|CDS

ATGGAAACTGGTTATACAATGAAGGCGGTGCTTTTGGAAGATGAAGTAGAGTTAAAGAATAATGTCGGAAGGAAATTGGTGAAGAGAGAGAGGCCAAGTTTCTTGAATGAAACTGGGTTTATGGGAACAGGGATGAAGATGAGAATGGGAATGGTGAATATGGCCGGAGAAGATTTAAGCGATTGGAACGTGCTCGGAAAGACGATTCCGGTGACGTTTGAAAAGGTTTCAGATTTATTCGAATGGAAGGACTTGTTCCC...

Protein

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531 aa · TkA07G398940|TK1151|PROTEIN

METGYTMKAVLLEDEVELKNNVGRKLVKRERPSFLNETGFMGTGMKMRMGMVNMAGEDLSDWNVLGKTIPVTFEKVSDLFEWKDLFPEWIDEEEEMHETLCPEIPMPDYKKYGYLDMIVVKIPCKFPAEGWARDVFRLQLHLMAANLVVRRGRRSWSRKPKVVIFSKCRPMVEIFRCEDLLVHDGDWWYYQPNIKKLEQKVYLPIGTCNLALPLWGKGNDEVYDINKIQKVNSRTKSIKRQAYATVLHSSESYVCGAIML...

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	`TkA07G398940`
TK1151 ID	TkA07G398940
OH-1004 ID	LXL04_030344
Relationship / confidence	Rbh High Identity Coverage Synteny / Strict
Protein identity (%)	100.000
Protein coverage (%)	TK1151 100.000 / OH-1004 90.153 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 TkA07G398940

Location Chr07:100232498-100235135 (+)

Description Similar to GUX2: UDP-glucuronate:xylan alpha-glucuronosyltransferase 2

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`UniProt: Q8GWW4`	Glycosyltransferase required for the addition of both glucuronic acid and 4-O-methylglucuronic acid branches to xylan in stem cell walls.	No verified direct reference in this release
`At3g18660`	Glycosyltransferase required for the addition of both glucuronic acid and 4-O-methylglucuronic acid branches to xylan in stem cell walls.	Absence of branches from xylan in Arabidopsis gux mutants reveals potential for simplification of lignocellulosic biomass.2010 · DOI: 10.1073/pnas.1005456107 An integrative approach to the identification of Arabidopsis and rice genes involved in xylan and secondary wall development.2010 · DOI: 10.1371/journal.pone.0015481
`At1g77130`	May be involved in the substitutions of the xylan backbone in stem glucuronoxylan.	No verified direct reference in this release
`At1g08990`	May be involved in the substitutions of the xylan backbone in stem glucuronoxylan.	No verified direct reference in this release
`At1g54940`	May be involved in the substitutions of the xylan backbone in stem glucuronoxylan.	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_030344 · 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:0009834 plant-type secondary cell wall biogenesis Biological Process

GO:0010417 glucuronoxylan biosynthetic process Biological Process

GO:0045492 xylan biosynthetic process Biological Process

GO:0071555 cell wall organization Biological Process

GO:0000138 Golgi trans cisterna Cellular Component

GO:0000139 Golgi membrane Cellular Component

GO:0005634 nucleus Cellular Component

GO:0005739 mitochondrion Cellular Component

GO:0005768 endosome Cellular Component

GO:0005794 Golgi apparatus Cellular Component

GO:0005802 trans-Golgi network Cellular Component

GO:0015020 glucuronosyltransferase activity Molecular Function

KEGG gene cross-reference

ath:AT1G08990

ath:AT1G54940

ath:AT1G77130

ath:AT3G18660

ath:AT4G33330

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.

Golgi apparatus0.573

Rank 1 · TkA07G398940 · TK1151

Endoplasmic reticulum0.162

Rank 2 · TkA07G398940 · TK1151

Cytoplasm0.095

Rank 3 · TkA07G398940 · TK1151

Cell membrane0.090

Rank 4 · TkA07G398940 · TK1151

Nucleus0.085

Rank 5 · TkA07G398940 · TK1151

LocPro · Direct prediction · Computational prediction, not experimental localization

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Predicted Functional Domains

Domain results are from Pfam-A/HMMER; positions are amino-acid coordinates on the protein sequence.

PF28720GUX1-5_N28-208 aa

PF01501Glyco_transf_8246-350 aa

PF31159Rhodo_GlycoT252-356 aa

PF03407Nucleotid_trans327-444 aa

PF01501Glyco_transf_8358-452 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
TkA07G398940	`PF28720`	GUX1-5_N	28	208	4.1e-63	213.0
TkA07G398940	`PF01501`	Glyco_transf_8	246	350	2.5e-16	60.7
TkA07G398940	`PF31159`	Rhodo_GlycoT	252	356	0.018	15.4
TkA07G398940	`PF03407`	Nucleotid_trans	327	444	0.0001	23.1
TkA07G398940	`PF01501`	Glyco_transf_8	358	452	2.5e-16	60.7

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.

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Protein	Organism	Description	Identity	Database	Confidence
`Q8GWW4`	Arabidopsis thaliana	sp\|Q8GWW4\|GUX2_ARATH UDP-glucuronate:xylan alpha-glucuronosyltransferase 2	61.600%	Swiss-Prot	High
`Q9LSB1`	Arabidopsis thaliana	sp\|Q9LSB1\|GUX1_ARATH UDP-glucuronate:xylan alpha-glucuronosyltransferase 1	47.600%	Swiss-Prot	Medium
`Q8W4A7`	Arabidopsis thaliana	sp\|Q8W4A7\|GUX3_ARATH Putative UDP-glucuronate:xylan alpha-glucuronosyltransferase 3	44.800%	Swiss-Prot	Medium
`F4HZC3`	Arabidopsis thaliana	sp\|F4HZC3\|GUX5_ARATH Putative UDP-glucuronate:xylan alpha-glucuronosyltransferase 5	44.900%	Swiss-Prot	Medium
`Q9FZ37`	Arabidopsis thaliana	sp\|Q9FZ37\|GUX4_ARATH Putative UDP-glucuronate:xylan alpha-glucuronosyltransferase 4	45.200%	Swiss-Prot	Medium

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