TkA04G029440 | RubberDandelionOmics

Gene overview

TkA04G029440

Reference: TK1151 Chr: Chr04 Coordinates: 7769904-7772539 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

2016 bp · TkA04G029440|TK1151|cDNA

CACATGCTATAATAGTATAATATAAAGTACTAGTAAACAAATAAATCATTATTATATGCCATACAGTTAATAAAACTAAAAATTAAGAAAGAAATAGTGGAGGCGGAGCCAACGCCCAAAGGCGCGGCGGAAGCGGAAGTACGCGCAGAGTTCACACAGAAATCTGGAAGTGAACAACCGCCGGTGAAAATCAACCGTCGTCAATTTACCGACTCAGCCATAAACCTAATTAATCTCCGTCGCCAGATCCGGTGAATCAA...

CDS

Download CDS FASTA

1545 bp · TkA04G029440|TK1151|CDS

ATGGATGACTTTGATATACTGGCAAGAGACTTTGGATTTCGGCCTCACGGAAAATCTGTTTCGGTGAAATCCGACGGTAACCGACCGCCGTCCTCATCAGCTACTTTCACTGAAGATAAGCATATGTTCAGCGACGTGTTTGGTGGTCCGCCTAAACACACAAACAACAACTTTAAATCTTCGTCGGCAATGGCAGACTTAGATTATGATGCGATCTTCAAAAATCCAGCCTCCACGAACAATGACGAAGTTAAAAGCAA...

Protein

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514 aa · TkA04G029440|TK1151|PROTEIN

MDDFDILARDFGFRPHGKSVSVKSDGNRPPSSSATFTEDKHMFSDVFGGPPKHTNNNFKSSSAMADLDYDAIFKNPASTNNDEVKSKTTSVKLPVYDDHIFDGLPGSKSKSMSSSALPRYEENIFASMTHKRNQQSDQFDDLMVSSRRTQKIEATKQNRSKSPIGFDNLIPSFGIGRPTTSNRSFDQSTSPPSSSQMADEIWLTVSEIPLFTQPTKSPPPSKPPPPIPKPKNLLPRSHSRKFGNGLSPKHPQSPLSDPPH...

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	`TkA04G029440`
TK1151 ID	TkA04G029440
OH-1004 ID	LXL04_019076
Relationship / confidence	Multi Source To Oh1004 / Complex relationship
Protein identity (%)	36.300
Protein coverage (%)	TK1151 97.665 / OH-1004 96.474 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 TkA04G029440

Location Chr04:7769904-7772539 (+)

Description Similar to At4g12770: Auxilin-related protein 2

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At4g12770`	Promotes probably uncoating of clathrin-coated vesicles.	No verified direct reference in this release
`At4g12780`	Promotes uncoating of clathrin-coated vesicles.	No verified direct reference in this release
`At1g75310`	Auxilin-like protein 1.	No verified direct reference in this release
`At1g75100`	Required for chloroplast photorelocation movement; chloroplast accumulation upon low blue light and for chloroplast movement to the bottom of cells in darkness, by modulating chloroplast actin (Cp-actin) filaments distribution, appearance and disappearance.	An auxilin-like J-domain protein, JAC1, regulates phototropin-mediated chloroplast movement in Arabidopsis.2005 · DOI: 10.1104/pp.105.067371 Overexpression of an auxilin-like gene (F9E10.5) can suppress Al uptake in roots of Arabidopsis.2007 · DOI: 10.1093/jxb/erl221 Crystallographic and functional analyses of J-domain of JAC1 essential for chloroplast photorelocation movement in Arabidopsis thaliana.2010 · DOI: 10.1093/pcp/pcq089 Red light, Phot1 and JAC1 modulate Phot2-dependent reorganization of chloroplast actin filaments and chloroplast avoidance movement.2011 · DOI: 10.1093/pcp/pcr087

Rice

No hit for this species in the current source table.

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_019076 · 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:0045806 negative regulation of endocytosis Biological Process

GO:0045926 negative regulation of growth Biological Process

GO:0072318 clathrin coat disassembly Biological Process

GO:0072583 clathrin-dependent endocytosis Biological Process

GO:1900186 negative regulation of clathrin-dependent endocytosis Biological Process

GO:0005634 nucleus Cellular Component

GO:0005737 cytoplasm Cellular Component

GO:0005783 endoplasmic reticulum Cellular Component

GO:0005794 Golgi apparatus Cellular Component

GO:0005829 cytosol Cellular Component

GO:0005886 plasma membrane Cellular Component

GO:0009504 cell plate Cellular Component

KEGG gene cross-reference

ath:AT1G75310

ath:AT4G12770

ath:AT4G12780

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.

Cytoplasm0.670

Rank 1 · TkA04G029440 · TK1151

Nucleus0.184

Rank 2 · TkA04G029440 · TK1151

Cell membrane0.138

Rank 3 · TkA04G029440 · TK1151

Golgi apparatus0.131

Rank 4 · TkA04G029440 · TK1151

Endoplasmic reticulum0.070

Rank 5 · TkA04G029440 · 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.

PF11166DUF2951271-308 aa

PF11166DUF2951378-433 aa

PF00226DnaJ457-506 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
TkA04G029440	`PF11166`	DUF2951	271	308	2.9	8.9
TkA04G029440	`PF11166`	DUF2951	378	433	2.9	8.9
TkA04G029440	`PF00226`	DnaJ	457	506	8.3e-05	23.3

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
`Q0WQ57`	Arabidopsis thaliana	sp\|Q0WQ57\|AUXI2_ARATH Auxilin-related protein 2	77.600%	Swiss-Prot	Low
`Q9SU08`	Arabidopsis thaliana	sp\|Q9SU08\|AUXI1_ARATH Auxilin-related protein 1	79.600%	Swiss-Prot	Low
`Q9FWS1`	Arabidopsis thaliana	sp\|Q9FWS1\|AUL1_ARATH Auxilin-like protein 1	61.600%	Swiss-Prot	Low
`Q9C9Q4`	Arabidopsis thaliana	sp\|Q9C9Q4\|JAC1_ARATH J domain-containing protein required for chloroplast accumulation response 1	57.600%	Swiss-Prot	Low

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