TkA03G010720 | RubberDandelionOmics

Gene overview

TkA03G010720

Reference: TK1151 Chr: Chr03 Coordinates: 2732742-2740864 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1748 bp · TkA03G010720|TK1151|cDNA

AACTAACCCCACAAAAAAAGGAAAGATTAAACACCATGCTCTCTTTAAACACTATAGCAACACCGAACATGAAGAACACATGGAATATGAAGGCCTCCATATATGGCATTTTGACCATTCTACTTCTATGGTCACCGGAACTTGGGGTCAGCGCCGCTAGAGACACCAAGCAATGGCGGCACCATGATGGCTCACGGCAGCTGAAGACGTTTTACCCTTCGTATGGAGAGAGCATGCCAAGTTCATTACAATATAGGAAA...

CDS

Download CDS FASTA

1383 bp · TkA03G010720|TK1151|CDS

ATGCTCTCTTTAAACACTATAGCAACACCGAACATGAAGAACACATGGAATATGAAGGCCTCCATATATGGCATTTTGACCATTCTACTTCTATGGTCACCGGAACTTGGGGTCAGCGCCGCTAGAGACACCAAGCAATGGCGGCACCATGATGGCTCACGGCAGCTGAAGACGTTTTACCCTTCGTATGGAGAGAGCATGCCAAGTTCATTACAATATAGGAAAACATCTACCATCTTTAATGTATTGAACTTTGGTGC...

Protein

Download Protein FASTA

460 aa · TkA03G010720|TK1151|PROTEIN

MLSLNTIATPNMKNTWNMKASIYGILTILLLWSPELGVSAARDTKQWRHHDGSRQLKTFYPSYGESMPSSLQYRKTSTIFNVLNFGAKGDGISDDTKAFEAAWLAACKLEASTMIIPKGSVFLIKPISFSGPNCESNIVFQLDGKIIAPKASGNWESGLLQWVEFTKLNGITIRGSGVVDGQGSGWWTKSGTKPTAIRFYGSSDVTVTGITIQNSPQTHLKFDNCQSVQVSEITVSSPGDSPNTDGIHLQNSQDVAIHSS...

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	`TkA03G010720`
TK1151 ID	TkA03G010720
OH-1004 ID	LXL04_006136
Relationship / confidence	Rbh High Identity Coverage Synteny / Strict
Protein identity (%)	99.400
Protein coverage (%)	TK1151 100.000 / OH-1004 100.000 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

Open Full ID Mapping

SNP / Indel variants and carrier samplesCRA009020 · TK1151

Expand to load variant records for this gene.

Basic Information and Functional Annotation

Gene ID TkA03G010720

Location Chr03:2732742-2740864 (+)

Description Similar to At1g48100: Polygalacturonase At1g48100

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At1g48100`	Polygalacturonase not involved in the final stages of pod shatter.	No verified direct reference in this release
`At2g41850`	Polygalacturonase involved in cell separation in the final stages of pod shatter, in anther dehiscence and in floral organ abscission.	Expression of polygalacturonases and evidence to support their role during cell separation processes in Arabidopsis thaliana.2007 · DOI: 10.1093/jxb/erm222 ARABIDOPSIS DEHISCENCE ZONE POLYGALACTURONASE1 (ADPG1), ADPG2, and QUARTET2 are Polygalacturonases required for cell separation during reproductive development in Arabidopsis.2009 · DOI: 10.1105/tpc.108.063768
`At1g80170`	Probable polygalacturonase At1g80170.	No verified direct reference in this release
`At3g15720`	Probable polygalacturonase At3g15720.	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_006136 · 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:0009831 plant-type cell wall modification involved in multidimensional cell growth Biological Process

GO:0009835 fruit ripening Biological Process

GO:0045490 pectin catabolic process Biological Process

GO:0071555 cell wall organization Biological Process

GO:0005576 extracellular region Cellular Component

GO:0005886 plasma membrane Cellular Component

GO:0009501 amyloplast Cellular Component

GO:0009505 plant-type cell wall Cellular Component

GO:0016020 membrane Cellular Component

GO:0004650 polygalacturonase activity Molecular Function

KEGG gene cross-reference

ath:AT1G48100

ath:AT1G80170

ath:AT3G15720

These KEGG gene identifiers are linked through homologous proteins; they do not establish pathway function for this gene.

Open Annotation Module

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.

Extracellular0.768

Rank 1 · TkA03G010720 · TK1151

Cytoplasm0.076

Rank 2 · TkA03G010720 · TK1151

Cell membrane0.062

Rank 3 · TkA03G010720 · TK1151

Endoplasmic reticulum0.059

Rank 4 · TkA03G010720 · TK1151

Lysosome / Vacuole0.057

Rank 5 · TkA03G010720 · 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_epim79-127 aa

PF00295Glyco_hydro_28110-410 aa

PF08301HCV_NS5a_1b154-170 aa

PF13229Beta_helix192-282 aa

PF08301HCV_NS5a_1b209-235 aa

PF12708Pect-lyase_RHGA_epim219-343 aa

PF13229Beta_helix246-343 aa

PF08301HCV_NS5a_1b332-400 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
TkA03G010720	`PF12708`	Pect-lyase_RHGA_epim	79	127	5.3e-08	33.6
TkA03G010720	`PF00295`	Glyco_hydro_28	110	410	4.8e-85	286.2
TkA03G010720	`PF08301`	HCV_NS5a_1b	154	170	0.088	14.1
TkA03G010720	`PF13229`	Beta_helix	192	282	9.7e-07	29.2
TkA03G010720	`PF08301`	HCV_NS5a_1b	209	235	0.088	14.1
TkA03G010720	`PF12708`	Pect-lyase_RHGA_epim	219	343	5.3e-08	33.6
TkA03G010720	`PF13229`	Beta_helix	246	343	9.7e-07	29.2
TkA03G010720	`PF08301`	HCV_NS5a_1b	332	400	0.088	14.1

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.

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Protein	Organism	Description	Identity	Database	Confidence
`Q949Z1`	Arabidopsis thaliana	sp\|Q949Z1\|PGLR4_ARATH Polygalacturonase At1g48100	48.700%	Swiss-Prot	Medium
`Q8RY29`	Arabidopsis thaliana	sp\|Q8RY29\|ADPG2_ARATH Polygalacturonase ADPG2	41.100%	Swiss-Prot	Medium
`Q94AJ5`	Arabidopsis thaliana	sp\|Q94AJ5\|PGLR5_ARATH Probable polygalacturonase At1g80170	41.800%	Swiss-Prot	Medium
`Q9LW07`	Arabidopsis thaliana	sp\|Q9LW07\|PGLR3_ARATH Probable polygalacturonase At3g15720	39.200%	Swiss-Prot	Medium

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