TkA08G155330 | RubberDandelionOmics

Gene overview

TkA08G155330

Reference: TK1151 Chr: Chr08 Coordinates: 40575983-40581492 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

2796 bp · TkA08G155330|TK1151|cDNA

ATAAGACAGCGCAACTCAGAGGGGTTTATGGCTTTATGCTGACCTGAGATCGCACTCCTTTTGCTCTCTTCAACTGCAAAATTCAAATCTCGGGATTCAACATCTACCGATGGACAAAGAATCAGGTTGCTGTTCCACACACCTTATAGAAGGAGATGGCACTTTCAATGCTGAAGGACTTGATAGTTTTATCAAAGAAGTCAAATTGGCTGATTGTGGACTTTCTTATGCTGTTGTTGCCATCATGGGCCCTCAAAGCA...

CDS

Download CDS FASTA

2406 bp · TkA08G155330|TK1151|CDS

ATGGACAAAGAATCAGGTTGCTGTTCCACACACCTTATAGAAGGAGATGGCACTTTCAATGCTGAAGGACTTGATAGTTTTATCAAAGAAGTCAAATTGGCTGATTGTGGACTTTCTTATGCTGTTGTTGCCATCATGGGCCCTCAAAGCAGTGGGAAGAGCACACTTCTGAATAATCTATTTCACACAAACTTCAGGGAAATGGATGCTTATAGGGGAAGGTCTCAAACCACAAAAGGTATTTGGATGGCGAGATGTGT...

Protein

Download Protein FASTA

801 aa · TkA08G155330|TK1151|PROTEIN

MDKESGCCSTHLIEGDGTFNAEGLDSFIKEVKLADCGLSYAVVAIMGPQSSGKSTLLNNLFHTNFREMDAYRGRSQTTKGIWMARCVGIEPCTIVMDLEGTDGRERGEDDTAFEKQSALFALAVSDVVLINMWCHDIGREQAANKPLLKTVFQVMLRLFSPRKTTLMFVIRDKTRTPLENLEPVLREDIQKIWDSVPKPEAHKHTPLRDFFNVEVVALSSFEEKEEMFKEQVAALRQRFFHSIAPNGLAGDRRGVVPASG...

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	`TkA08G155330`
TK1151 ID	TkA08G155330
OH-1004 ID	LXL04_036790
Relationship / confidence	Multi Source To Oh1004 / Complex relationship
Protein identity (%)	72.400
Protein coverage (%)	TK1151 94.757 / OH-1004 98.833 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 TkA08G155330

Location Chr08:40575983-40581492 (-)

Description Similar to RHD3: Protein ROOT HAIR DEFECTIVE 3

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At3g13870`	Probable GTP-binding protein involved in cell wall expansion.	Regulation of the cell expansion gene RHD3 during Arabidopsis development.2002 · DOI: 10.1104/pp.002675 The Arabidopsis RHD3 gene is required for cell wall biosynthesis and actin organization.2003 · DOI: 10.1007/s00425-003-1067-7 A GFP-based assay reveals a role for RHD3 in transport between the endoplasmic reticulum and Golgi apparatus.2004 · DOI: 10.1046/j.1365-313x.2003.01969.x Loss-of-function mutations of ROOT HAIR DEFECTIVE3 suppress root waving, skewing, and epidermal cell file rotation in Arabidopsis.2005 · DOI: 10.1104/pp.105.059774 Growth and ultrastructure of Arabidopsis root hairs: the rhd3 mutation alters vacuole enlargement and tip growth.1997 · DOI: 10.1007/bf01007706 The ROOT HAIR DEFECTIVE3 gene encodes an evolutionarily conserved protein with GTP-binding motifs and is required for regulated cell enlargement in Arabidopsis.1997 · DOI: 10.1101/gad.11.6.799
`At1g72960`	Probable GTP-binding protein that may be involved in cell development.	No verified direct reference in this release
`At5g45160`	Probable GTP-binding protein that may be involved in cell development.	No verified direct reference in this release

Rice

Reference gene ID	Possible function	Papers / DOI
`Os01g0575000`	Probable GTP-binding protein that may be involved in cell development.	No verified direct reference in this release
`Os12g0604600`	Probable GTP-binding protein that may be involved in cell development.	No verified direct reference in this release

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_036790 · 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:0006888 endoplasmic reticulum to Golgi vesicle-mediated transport Biological Process

GO:0009832 plant-type cell wall biogenesis Biological Process

GO:0009932 cell tip growth Biological Process

GO:0010053 root epidermal cell differentiation Biological Process

GO:0016320 endoplasmic reticulum membrane fusion Biological Process

GO:0030036 actin cytoskeleton organization Biological Process

GO:0000139 Golgi membrane Cellular Component

GO:0000325 plant-type vacuole Cellular Component

GO:0005634 nucleus Cellular Component

GO:0005737 cytoplasm Cellular Component

GO:0005783 endoplasmic reticulum Cellular Component

GO:0005789 endoplasmic reticulum membrane Cellular Component

KEGG gene cross-reference

ath:AT1G72960

ath:AT3G13870

ath:AT5G45160

dosa:Os01g0575000

dosa:Os12g0604600

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.

Endoplasmic reticulum0.542

Rank 1 · TkA08G155330 · TK1151

Golgi apparatus0.233

Rank 2 · TkA08G155330 · TK1151

Cytoplasm0.190

Rank 3 · TkA08G155330 · TK1151

Nucleus0.129

Rank 4 · TkA08G155330 · TK1151

Cell membrane0.115

Rank 5 · TkA08G155330 · 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.

PF02263GBP39-124 aa

PF25683URGCP_GTPase41-169 aa

PF13173AAA_1441-65 aa

PF13191AAA_1642-170 aa

PF00005ABC_tran42-62 aa

PF13555AAA_2942-57 aa

PF01926MMR_HSR143-130 aa

PF00350Dynamin_N43-65 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
TkA08G155330	`PF02263`	GBP	39	124	0.0006	19.8
TkA08G155330	`PF25683`	URGCP_GTPase	41	169	8.3e-08	32.1
TkA08G155330	`PF13173`	AAA_14	41	65	0.046	14.4
TkA08G155330	`PF13191`	AAA_16	42	170	0.036	15.3
TkA08G155330	`PF00005`	ABC_tran	42	62	0.12	13.7
TkA08G155330	`PF13555`	AAA_29	42	57	0.15	12.6
TkA08G155330	`PF01926`	MMR_HSR1	43	130	0.00061	20.6
TkA08G155330	`PF00350`	Dynamin_N	43	65	0.00066	20.5
TkA08G155330	`PF13521`	AAA_28	43	63	0.016	16.1
TkA08G155330	`PF00735`	Septin	43	78	0.19	11.7
TkA08G155330	`PF05879`	RHD3_GTPase	46	281	1.9e-116	388.4
TkA08G155330	`PF20428`	Sey1_3HB	323	755	2.6e-128	429.2
TkA08G155330	`PF25683`	URGCP_GTPase	325	416	8.3e-08	32.1

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.

Download current result

Protein	Organism	Description	Identity	Database	Confidence
`P93042`	Arabidopsis thaliana	sp\|P93042\|RHD3_ARATH Protein ROOT HAIR DEFECTIVE 3	72.300%	Swiss-Prot	High
`Q9SSN0`	Arabidopsis thaliana	sp\|Q9SSN0\|RHD31_ARATH Protein ROOT HAIR DEFECTIVE 3 homolog 1	67.400%	Swiss-Prot	High
`Q9FKE9`	Arabidopsis thaliana	sp\|Q9FKE9\|RHD32_ARATH Protein ROOT HAIR DEFECTIVE 3 homolog 2	66.200%	Swiss-Prot	High
`Q0JLS6`	Oryza sativa subsp. japonica	sp\|Q0JLS6\|RHD3_ORYSJ Protein ROOT HAIR DEFECTIVE 3	65.800%	Swiss-Prot	High
`Q2QMH2`	Oryza sativa subsp. japonica	sp\|Q2QMH2\|RHD31_ORYSJ Protein ROOT HAIR DEFECTIVE 3 homolog 1	63.000%	Swiss-Prot	High

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