TkA05G003450 | RubberDandelionOmics

Gene overview

TkA05G003450

Reference: TK1151 Chr: Chr05 Coordinates: 1016887-1021301 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

2089 bp · TkA05G003450|TK1151|cDNA

TTACCCCCTAGCCCCCCTACAGATACACAGTTTCCTCTTATATATCCCACCATATCTCCAATCCCTGTCTTGTCCCATTGTGCATTTACAATTCCACCTTCCACCACCATGCATACCAATCTTACTTCAGAAACCCACAAACGCCGTCGTTTGATAATGCTCGTTATGCCATTATCAGCCCTCCTTTTACTAGCACTCACTGTTTCTTCTTTCCTTACATTTACAAATCACCACCCGTCACTTTCATTATTTGCGAGAAG...

CDS

Download CDS FASTA

1845 bp · TkA05G003450|TK1151|CDS

TTACCCCCTAGCCCCCCTACAGATACACAGTTTCCTCTTATATATCCCACCATATCTCCAATCCCTGTCTTGTCCCATTGTGCATTTACAATTCCACCTTCCACCACCATGCATACCAATCTTACTTCAGAAACCCACAAACGCCGTCGTTTGATAATGCTCGTTATGCCATTATCAGCCCTCCTTTTACTAGCACTCACTGTTTCTTCTTTCCTTACATTTACAAATCACCACCCGTCACTTTCATTATTTGCGAGAAG...

Protein

Download Protein FASTA

614 aa · TkA05G003450|TK1151|PROTEIN

LPPSPPTDTQFPLIYPTISPIPVLSHCAFTIPPSTTMHTNLTSETHKRRRLIMLVMPLSALLLLALTVSSFLTFTNHHPSLSLFARRPTSHLHIHKRLQTENAKLQCAGALYHDLCISTLTRIVPDLSSKSLPDIISATVSETISDVRSTDFNVTNIRRKLPHLTLLEIRALEDCHSLFLDTVSQLKSAVSDLSKSSSSKYNNFRTMLSAAMTNQDTCLDGFAGSKSEVKISRHFRKALKGISRQVSNSLALLKKINGTG...

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	`TkA05G003450`
TK1151 ID	TkA05G003450
OH-1004 ID	LXL04_018901
Relationship / confidence	Rbh High Identity Coverage Synteny / Strict
Protein identity (%)	99.800
Protein coverage (%)	TK1151 96.254 / 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

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SNP / Indel variants and carrier samplesCRA009020 · TK1151

Expand to load variant records for this gene.

Basic Information and Functional Annotation

Gene ID TkA05G003450

Location Chr05:1016887-1021301 (+)

Description Similar to PME40: Probable pectinesterase/pectinesterase inhibitor 40

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At4g02320`	Acts in the modification of cell walls via demethylesterification of cell wall pectin.	No verified direct reference in this release
`At4g02300`	Acts in the modification of cell walls via demethylesterification of cell wall pectin.	No verified direct reference in this release
`At1g53830`	Acts in the modification of cell walls via demethylesterification of cell wall pectin.	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_018901 · 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:0042545 cell wall modification Biological Process

GO:0045490 pectin catabolic process Biological Process

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

GO:0005576 extracellular region Cellular Component

GO:0004857 enzyme inhibitor activity Molecular Function

GO:0030599 pectinesterase activity Molecular Function

GO:0046910 pectinesterase inhibitor activity Molecular Function

KEGG gene cross-reference

ath:AT4G02300

ath:AT4G02320

sly:544016

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.

Extracellular0.295

Rank 1 · TkA05G003450 · TK1151

Cell membrane0.283

Rank 2 · TkA05G003450 · TK1151

Lysosome / Vacuole0.139

Rank 3 · TkA05G003450 · TK1151

Endoplasmic reticulum0.138

Rank 4 · TkA05G003450 · TK1151

Cytoplasm0.121

Rank 5 · TkA05G003450 · 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.

PF04043PMEI107-252 aa

PF20669Exo70_N179-213 aa

PF01095Pectinesterase295-592 aa

PF12708Pect-lyase_RHGA_epim316-370 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
TkA05G003450	`PF04043`	PMEI	107	252	3.7e-26	92.8
TkA05G003450	`PF20669`	Exo70_N	179	213	0.014	16.3
TkA05G003450	`PF01095`	Pectinesterase	295	592	1.9e-143	477.3
TkA05G003450	`PF12708`	Pect-lyase_RHGA_epim	316	370	0.033	14.7

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
`O81301`	Arabidopsis thaliana	sp\|O81301\|PME40_ARATH Probable pectinesterase/pectinesterase inhibitor 40	54.100%	Swiss-Prot	High
`O81415`	Arabidopsis thaliana	sp\|O81415\|PME39_ARATH Probable pectinesterase/pectinesterase inhibitor 39	54.100%	Swiss-Prot	High
`Q42534`	Arabidopsis thaliana	sp\|Q42534\|PME2_ARATH Pectinesterase 2	48.200%	Swiss-Prot	Medium

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