TkA05G213180 | RubberDandelionOmics

Gene overview

TkA05G213180

Reference: TK1151 Chr: Chr05 Coordinates: 53624749-53628924 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1353 bp · TkA05G213180|TK1151|cDNA

TTACACTCGGATTGCCATCTTGGCATCTCTGTCTCTCCCACTTCATTGTAGCCATGCCCTGAAACACCATACCTTTCCATATACCTCTCTGCCTCGCCCTCATCTCAATCAATCTTCCATATGGGTGAAATTTCGATCCCTCCTTCCTTCTTCTTAGAAATCGTCACAGCAAATGGATCGCGGCGACTTCTCGCCAACTGGGTTTGACTCACGCCTCCCTTTCGATCTCCAGATAGGGGCGAGAATGCTGTACTTAGGCC...

CDS

Download CDS FASTA

675 bp · TkA05G213180|TK1151|CDS

ATGGAGAAAGTCATTAACATATTAAAACCAAAACCTAATCCACAACAGCTCTTACGCGATTGTCAACGCCGTCTCCGCCAAGAAACTCGCAACATCGACCGCCAGATTCGTGATATCCAGCGAGAAGAGAAAAACGTCCAGAAAGCAATCCGAGAGGCTGCCAAGAGAAACGATATGGGTTCTGCTAAGCCACTCGCTAAAGAAATTGTGCAATCCAGAAGAACCGTACACCGCCTCTATGAAAACAAAGCTCAGTTGAA...

Protein

Download Protein FASTA

224 aa · TkA05G213180|TK1151|PROTEIN

MEKVINILKPKPNPQQLLRDCQRRLRQETRNIDRQIRDIQREEKNVQKAIREAAKRNDMGSAKPLAKEIVQSRRTVHRLYENKAQLNSISMHLGESVAIARTVGHLSKSVEVMKIVNNLMKAPEMAVTMQEFNKEMTKAGVIEEMVNDAVDSALDSDDIEDEIDEEVDKVLTSLAGETAAQLPEAVRKEKLKQPANPNQDAEDEGVDDEEELEEIRARLAKVSF

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	`TkA05G213180`
TK1151 ID	TkA05G213180
OH-1004 ID	LXL04_004554
Relationship / confidence	Non Reciprocal Best Hit / Complex relationship
Protein identity (%)	89.200
Protein coverage (%)	TK1151 99.107 / OH-1004 99.107 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 TkA05G213180

Location Chr05:53624749-53628924 (-)

Description Similar to VPS24-1: Vacuolar protein sorting-associated protein 24 homolog 1

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At5g22950`	Component of the ESCRT-III complex, which is required for multivesicular bodies (MVBs) formation and sorting of endosomal cargo proteins into MVBs.	No verified direct reference in this release
`At3g45000`	Component of the ESCRT-III complex, which is required for multivesicular bodies (MVBs) formation and sorting of endosomal cargo proteins into MVBs.	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_004554 · 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:0015031 protein transport Biological Process

GO:0032509 endosome transport via multivesicular body sorting pathway Biological Process

GO:0045324 late endosome to vacuole transport Biological Process

GO:0070676 intralumenal vesicle formation Biological Process

GO:0000815 ESCRT III complex Cellular Component

GO:0005634 nucleus Cellular Component

GO:0005737 cytoplasm Cellular Component

GO:0005770 late endosome Cellular Component

GO:0005771 multivesicular body Cellular Component

GO:0005829 cytosol Cellular Component

GO:0031902 late endosome membrane Cellular Component

KEGG gene cross-reference

ath:AT3G45000

ath:AT5G22950

dre:406621

xtr:548983

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.

Cytoplasm0.804

Rank 1 · TkA05G213180 · TK1151

Nucleus0.254

Rank 2 · TkA05G213180 · TK1151

Mitochondrion0.071

Rank 3 · TkA05G213180 · TK1151

Cell membrane0.065

Rank 4 · TkA05G213180 · TK1151

Endoplasmic reticulum0.047

Rank 5 · TkA05G213180 · 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.

PF23159WHD_Rok3-49 aa

PF15346ARGLU19-57 aa

PF03357Snf722-188 aa

PF26346Plectin_PPL22-73 aa

PF27248MJ1674_2nd24-53 aa

PF07631PSD436-80 aa

PF16925TetR_C_1342-59 aa

PF05327RRN344-83 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
TkA05G213180	`PF23159`	WHD_Rok	3	49	2.8	8.7
TkA05G213180	`PF15346`	ARGLU	19	57	0.018	15.6
TkA05G213180	`PF03357`	Snf7	22	188	1.1e-32	113.8
TkA05G213180	`PF26346`	Plectin_PPL	22	73	2.0	8.8
TkA05G213180	`PF27248`	MJ1674_2nd	24	53	0.59	11.4
TkA05G213180	`PF07631`	PSD4	36	80	0.074	14.3
TkA05G213180	`PF16925`	TetR_C_13	42	59	0.04	15.0
TkA05G213180	`PF05327`	RRN3	44	83	3.7	6.7
TkA05G213180	`PF27248`	MJ1674_2nd	81	137	0.59	11.4
TkA05G213180	`PF16925`	TetR_C_13	85	135	0.04	15.0
TkA05G213180	`PF07631`	PSD4	103	177	0.074	14.3
TkA05G213180	`PF05327`	RRN3	107	215	3.7	6.7
TkA05G213180	`PF26346`	Plectin_PPL	109	138	2.0	8.8
TkA05G213180	`PF14833`	NAD_binding_11	111	153	0.085	13.8
TkA05G213180	`PF23159`	WHD_Rok	111	141	2.8	8.7
TkA05G213180	`PF05696`	DUF826	135	197	0.0024	19.0

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
`Q9FFB3`	Arabidopsis thaliana	sp\|Q9FFB3\|VP241_ARATH Vacuolar protein sorting-associated protein 24 homolog 1	78.400%	Swiss-Prot	High
`Q9LXH5`	Arabidopsis thaliana	sp\|Q9LXH5\|VP242_ARATH Putative vacuolar protein sorting-associated protein 24 homolog 2	65.600%	Swiss-Prot	High

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