TkA08G262410 | RubberDandelionOmics

Gene overview

TkA08G262410

Reference: TK1151 Chr: Chr08 Coordinates: 68433728-68435325 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1517 bp · TkA08G262410|TK1151|cDNA

AAACTGTCCTCCGATCCATGCTCGATCCATCTCTATTCTTACATTTGATCCTATGAAAATGACGATGAGGATTAATCACAACATGATCATCACCTCCGCCATTATTGTAGCTGCTATATATCTCACTTGTTCAACAACTGCAGCACCAACAGTGTCAGGACTCATTAACGTCGTCAATTTGGGAGCCATCCCCGACGGAAAAACAGACTCGACCCTACCATTTCAATCTGCATGGGCTTCTGCATGTTCTTCATCTAAAC...

CDS

Download CDS FASTA

1185 bp · TkA08G262410|TK1151|CDS

ATGAAAATGACGATGAGGATTAATCACAACATGATCATCACCTCCGCCATTATTGTAGCTGCTATATATCTCACTTGTTCAACAACTGCAGCACCAACAGTGTCAGGACTCATTAACGTCGTCAATTTGGGAGCCATCCCCGACGGAAAAACAGACTCGACCCTACCATTTCAATCTGCATGGGCTTCTGCATGTTCTTCATCTAAACCAGTTACCATCTACGTCCCCTCCGGCAGGTTTTTCCTCCGATCAGCTAATTT...

Protein

Download Protein FASTA

394 aa · TkA08G262410|TK1151|PROTEIN

MKMTMRINHNMIITSAIIVAAIYLTCSTTAAPTVSGLINVVNLGAIPDGKTDSTLPFQSAWASACSSSKPVTIYVPSGRFFLRSANFQGGGCNNKAINFLIKGTLLAPTDYGKSSSDVWIKFENATGVSISGGSLDGRGTPLWACKASSGSCPAGATTLGFFNSRNIVITGLRSINSQKFHIVMDGCQNVKLQRITVSAPGNSPNTDGIHIESSSGVTVLNTRIATGDDCISIGPGSSNLWIQNITCGPGHGVSIGSLGW...

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	`TkA08G262410`
TK1151 ID	TkA08G262410
OH-1004 ID	LXL04_004707
Relationship / confidence	Non Reciprocal Best Hit / Complex relationship
Protein identity (%)	60.500
Protein coverage (%)	TK1151 88.071 / OH-1004 89.031 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 TkA08G262410

Location Chr08:68433728-68435325 (-)

Description Similar to Polygalacturonase

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At2g43860`	Probable polygalacturonase At2g43860.	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_004707 · 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:0005975 carbohydrate metabolic process Biological Process

GO:0009555 pollen development Biological Process

GO:0009835 fruit ripening Biological Process

GO:0009846 pollen germination Biological Process

GO:0045490 pectin catabolic process Biological Process

GO:0048868 pollen tube development Biological Process

GO:0071555 cell wall organization Biological Process

GO:0005576 extracellular region Cellular Component

GO:0005783 endoplasmic reticulum Cellular Component

GO:0005794 Golgi apparatus Cellular Component

GO:0031982 vesicle Cellular Component

GO:0043667 pollen wall Cellular Component

KEGG gene cross-reference

ath:AT2G43860

ghi:107942091

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.

Extracellular0.830

Rank 1 · TkA08G262410 · TK1151

Cytoplasm0.056

Rank 2 · TkA08G262410 · TK1151

Cell membrane0.044

Rank 3 · TkA08G262410 · TK1151

Endoplasmic reticulum0.041

Rank 4 · TkA08G262410 · TK1151

Lysosome / Vacuole0.036

Rank 5 · TkA08G262410 · 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.

PF12708Pect-lyase_RHGA_epim38-270 aa

PF00295Glyco_hydro_2865-388 aa

PF13229Beta_helix154-244 aa

PF13229Beta_helix163-290 aa

PF05048NosD163-232 aa

PF12708Pect-lyase_RHGA_epim262-306 aa

PF05048NosD271-349 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
TkA08G262410	`PF12708`	Pect-lyase_RHGA_epim	38	270	1.2e-13	52.1
TkA08G262410	`PF00295`	Glyco_hydro_28	65	388	7.3e-88	295.5
TkA08G262410	`PF13229`	Beta_helix	154	244	0.0029	17.9
TkA08G262410	`PF13229`	Beta_helix	163	290	0.0029	17.9
TkA08G262410	`PF05048`	NosD	163	232	0.023	14.8
TkA08G262410	`PF12708`	Pect-lyase_RHGA_epim	262	306	1.2e-13	52.1
TkA08G262410	`PF05048`	NosD	271	349	0.023	14.8

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
`O22818`	Arabidopsis thaliana	sp\|O22818\|PGLR6_ARATH Probable polygalacturonase At2g43860	55.900%	Swiss-Prot	High

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