TkA01G167550 | RubberDandelionOmics

Gene overview

TkA01G167550

Reference: TK1151 Chr: Chr01 Coordinates: 42839068-42841594 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

993 bp · TkA01G167550|TK1151|cDNA

TTCAACGGCTATAGATCAACGGTAAACCAAGTAAGAATGAAATTATATTAGATAAGAGGGGCCGTAGACTTTATAAATCCATATATGATATAGTATTTAATCCTATTATGCTAACTGAAGGTGGCCTAGGCTAATATCTTATTACATAATTTGGAAGAGTTGGGGTAGAGAGGATTATTGATCAGATAACTGCAGTTTTTTCTATACTAAAACTCGTGAAGCATCGTTGTGTGTAAGAATGTCACTAGCGATGTCCCAAC...

CDS

Download CDS FASTA

516 bp · TkA01G167550|TK1151|CDS

ATGATACTACCCTCTTACGTCAAATATCTTATTCTCATTCTTCTCTCTTTCTATACAACAAGGGCTCATCAAGCACCATCTCCCCCAAACCCTAGGCTCCAAAAAGCTTATTTTGCACTCCAAGCATGGAAACATTCGATAAAGTCCGATCCTTCCGGCTTCACTTCAAATTGGTACGGTTATAACGTGTGTAACTACACTGGGGTCTTTTGTGCGCCTTCTTTAGACGACCCACATGTGACCACAGTTGCTGGTATCGA...

Protein

Download Protein FASTA

171 aa · TkA01G167550|TK1151|PROTEIN

MILPSYVKYLILILLSFYTTRAHQAPSPPNPRLQKAYFALQAWKHSIKSDPSGFTSNWYGYNVCNYTGVFCAPSLDDPHVTTVAGIDLNHANLSGSLPEDLGLLTDLALFHINSNKFCGTVPKSFYKLGLLYELDISNNRFSGLWCSESRFAMQFVVFNSENCGAWTRKPV

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	`TkA01G167550`
TK1151 ID	TkA01G167550
OH-1004 ID	LXL04_012393
Relationship / confidence	Rbh Below Probable Coverage Or Synteny Threshold / Review
Protein identity (%)	100.000
Protein coverage (%)	TK1151 66.667 / OH-1004 28.715 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 TkA01G167550

Location Chr01:42839068-42841594 (-)

Description Similar to LRX6: Leucine-rich repeat extensin-like protein 6

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At3g24480`	Modulates cell morphogenesis by regulating cell wall formation and assembly, and/or growth polarization.	No verified direct reference in this release
`At3g22800`	Modulates cell morphogenesis by regulating cell wall formation and assembly, and/or growth polarization.	No verified direct reference in this release
`At4g13340`	Modulates cell morphogenesis by regulating cell wall formation and assembly, and/or growth polarization.	No verified direct reference in this release
`At1g62440`	Modulates cell morphogenesis by regulating cell wall formation and assembly, and/or growth polarization.	Synergistic interaction of the two paralogous Arabidopsis genes LRX1 and LRX2 in cell wall formation during root hair development.2003 · DOI: 10.1046/j.1365-313x.2003.01784.x
`At1g12040`	Modulates cell morphogenesis by regulating cell wall formation and assembly, and/or growth polarization.	The chimeric leucine-rich repeat/extensin cell wall protein LRX1 is required for root hair morphogenesis in Arabidopsis thaliana.2001 · DOI: 10.1101/gad.200201 Synergistic interaction of the two paralogous Arabidopsis genes LRX1 and LRX2 in cell wall formation during root hair development.2003 · DOI: 10.1046/j.1365-313x.2003.01784.x

Rice

No hit for this species in the current source table.

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_012393 · 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:0000902 cell morphogenesis Biological Process

GO:0009826 unidimensional cell growth Biological Process

GO:0010054 trichoblast differentiation Biological Process

GO:0071555 cell wall organization Biological Process

GO:0005576 extracellular region Cellular Component

GO:0005886 plasma membrane Cellular Component

GO:0009505 plant-type cell wall Cellular Component

GO:0009506 plasmodesma Cellular Component

GO:0099503 secretory vesicle Cellular Component

GO:0005199 structural constituent of cell wall Molecular Function

GO:0042277 peptide binding Molecular Function

KEGG gene cross-reference

ath:AT1G12040

ath:AT3G22800

ath:AT3G24480

ath:AT4G13340

ath:AT4G18670

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.

Extracellular0.308

Rank 1 · TkA01G167550 · TK1151

Cell membrane0.246

Rank 2 · TkA01G167550 · TK1151

Endoplasmic reticulum0.155

Rank 3 · TkA01G167550 · TK1151

Cytoplasm0.094

Rank 4 · TkA01G167550 · TK1151

Lysosome / Vacuole0.085

Rank 5 · TkA01G167550 · 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.

PF08263LRRNT_238-71 aa

PF00560LRR_186-102 aa

PF13855LRR_8104-141 aa

PF00560LRR_1110-128 aa

PF00560LRR_1131-145 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
TkA01G167550	`PF08263`	LRRNT_2	38	71	7.2e-07	30.1
TkA01G167550	`PF00560`	LRR_1	86	102	9.7e-05	22.5
TkA01G167550	`PF13855`	LRR_8	104	141	0.06	13.8
TkA01G167550	`PF00560`	LRR_1	110	128	9.7e-05	22.5
TkA01G167550	`PF00560`	LRR_1	131	145	9.7e-05	22.5

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
`Q9LHF1`	Arabidopsis thaliana	sp\|Q9LHF1\|LRX4_ARATH Leucine-rich repeat extensin-like protein 4	68.300%	Swiss-Prot	Medium
`Q9LUI1`	Arabidopsis thaliana	sp\|Q9LUI1\|LRX6_ARATH Leucine-rich repeat extensin-like protein 6	76.100%	Swiss-Prot	Medium
`Q9T0K5`	Arabidopsis thaliana	sp\|Q9T0K5\|LRX3_ARATH Leucine-rich repeat extensin-like protein 3	72.500%	Swiss-Prot	Medium
`O48809`	Arabidopsis thaliana	sp\|O48809\|LRX2_ARATH Leucine-rich repeat extensin-like protein 2	62.300%	Swiss-Prot	Medium
`O65375`	Arabidopsis thaliana	sp\|O65375\|LRX1_ARATH Leucine-rich repeat extensin-like protein 1	61.100%	Swiss-Prot	Medium

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