TkA01G018370 | RubberDandelionOmics

Gene overview

TkA01G018370

Reference: TK1151 Chr: Chr01 Coordinates: 4672156-4677365 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1958 bp · TkA01G018370|TK1151|cDNA

CTTTAGTACTAAACTTAGAAGAATACAAACCTACTTAAAATGAAATATTCAATTTCAACGAATATGGCAAGGTAACGCGCTTTCACGCGTTTGAAACGCCAAAAGGGTGACAAAACATCGTGTATCATGTCGGTAGCTACTTCTTAGTTCTTACTCCTCACTAAAGCTTGAGTAGGAGCGAGTAAGACGAATACTCTCAGAAACGATTTTATCGCCTTGCTTGGTAGCTCCACCGCACCACCGCCTTATCTCCGCCGTCA...

CDS

Download CDS FASTA

1341 bp · TkA01G018370|TK1151|CDS

ATGAAGCGCGGTGGAGTTTGGGATGTAATTACGTGTTTCGCCGCAGTATTACTGTTCCTCCGGTGCTCCTGCTCAGCGGCTGAATTGGTTACTTGTTCTGGAATAGTGCCGATGGCTTACCGGAGCGATAAGATCTCATTAGCTGATTTTGGTGCTGTCGGAGACGGGAGAACGCTGAATACAAAAGCGTTCAGGGAGGCGATTTACCGGATTGAGCATTTGAGGAGGAGAGGAGGGACGCTGCTTTACATTCCTCCTGG...

Protein

Download Protein FASTA

446 aa · TkA01G018370|TK1151|PROTEIN

MKRGGVWDVITCFAAVLLFLRCSCSAAELVTCSGIVPMAYRSDKISLADFGAVGDGRTLNTKAFREAIYRIEHLRRRGGTLLYIPPGVYLTESFNLTSRMTLYLAKGAVIKATQDTSNWPLIAPLPSYGRGRERPGGRYISFIHGDGLHDVIITGENGTIDGQGDVWWNMWRQRTLKFTRPNLVEFKDSRGIIISNVIFKNSPFWNIHPVYCSNVVIRYVTILAPADSPNTDGIDPDSSSHVCIEDSYITTGDDLVAVKS...

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	`TkA01G018370`
TK1151 ID	TkA01G018370
OH-1004 ID	LXL04_005298
Relationship / confidence	Non Reciprocal Best Hit / Complex relationship
Protein identity (%)	53.100
Protein coverage (%)	TK1151 91.031 / OH-1004 84.664 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 TkA01G018370

Location Chr01:4672156-4677365 (-)

Description Similar to GSVIVT00026920001: Probable polygalacturonase

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At1g80170`	Probable polygalacturonase At1g80170.	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_005298 · 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:0009830 cell wall modification involved in abscission Biological Process

GO:0009901 anther dehiscence Biological Process

GO:0010047 fruit dehiscence Biological Process

GO:0010227 floral organ abscission Biological Process

GO:0045490 pectin catabolic process Biological Process

GO:0071555 cell wall organization Biological Process

GO:0005576 extracellular region Cellular Component

GO:0005737 cytoplasm Cellular Component

GO:0005886 plasma membrane Cellular Component

GO:0009505 plant-type cell wall Cellular Component

GO:0016020 membrane Cellular Component

KEGG gene cross-reference

ath:AT2G41850

ath:AT3G15720

ath:AT3G57510

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.

Extracellular0.557

Rank 1 · TkA01G018370 · TK1151

Lysosome / Vacuole0.122

Rank 2 · TkA01G018370 · TK1151

Cytoplasm0.095

Rank 3 · TkA01G018370 · TK1151

Cell membrane0.091

Rank 4 · TkA01G018370 · TK1151

Endoplasmic reticulum0.068

Rank 5 · TkA01G018370 · 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.

PF12708Pect-lyase_RHGA_epim46-115 aa

PF00295Glyco_hydro_28142-422 aa

PF13229Beta_helix184-350 aa

PF12708Pect-lyase_RHGA_epim205-303 aa

PF12708Pect-lyase_RHGA_epim293-336 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
TkA01G018370	`PF12708`	Pect-lyase_RHGA_epim	46	115	1.8e-11	45.0
TkA01G018370	`PF00295`	Glyco_hydro_28	142	422	6.5e-41	141.2
TkA01G018370	`PF13229`	Beta_helix	184	350	0.055	13.8
TkA01G018370	`PF12708`	Pect-lyase_RHGA_epim	205	303	1.8e-11	45.0
TkA01G018370	`PF12708`	Pect-lyase_RHGA_epim	293	336	1.8e-11	45.0

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.

Download current result

Protein	Organism	Description	Identity	Database	Confidence
`Q94AJ5`	Arabidopsis thaliana	sp\|Q94AJ5\|PGLR5_ARATH Probable polygalacturonase At1g80170	25.400%	Swiss-Prot	Low

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