TkA01G564800 | RubberDandelionOmics

Gene overview

TkA01G564800

Reference: TK1151 Chr: Chr01 Coordinates: 142100320-142103997 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1868 bp · TkA01G564800|TK1151|cDNA

CTTTACTCTCACTCTCTGTTAAAGTAAACCACCCCCTTCCCCTCCAATGGATTCCCTTCTCTCCTCTTCCATGGCCAAACGCCCCTGCTCCGCACCTAAGCCTACCTCATCCGATTCTTCTTCCGATCGCTTCAACATGGACGCTATCTTAGCATCATTCTTAGCTCTCTCAGATTCTCCTTCAATCAACACCTCATTCGACCGCCTCATCGAATGTACGTCCTCTGATTCCGATCAAAAGCAATTGATTGAACGAGCTT...

CDS

Download CDS FASTA

762 bp · TkA01G564800|TK1151|CDS

ATGGACAATACTGCCCTCTGGGCATCATTATCAGCCTGCCCATCTCTCCTTGACCTTGAAATTGTCGGCTTGCATGTTGAGTTGAGGCACACTCTAGAGTCAATAAGTAAAAACTGTCCCTTGTTAGAACGATTGGTTTTTGAATCTTCAAAAACAGGTAGAGATGACGGTTTAAAATTCCCAACTTGCAATGAGTTTGTCCTAAACTGTCCCAACATAACCACTTTAGCACTAAAAGGATTCAAACTCCATGACTACAA...

Protein

Download Protein FASTA

253 aa · TkA01G564800|TK1151|PROTEIN

MDNTALWASLSACPSLLDLEIVGLHVELRHTLESISKNCPLLERLVFESSKTGRDDGLKFPTCNEFVLNCPNITTLALKGFKLHDYKARMLVKGLQKLKHLDLSTSYSFTGSFLKNLSENGGGDNLEVMILRDCMHLKEFEVQRFMSAVVAGQFKHLKHLDISNREGLACEGDWYNRCYSASFIPIKQVLEQRPDFCLVAEFPIGSYIEAEQMSGSDVSPDTSDGSVFMSTLEDSGNEDSLETSFVSYEEASD

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	`TkA01G564800`
TK1151 ID	TkA01G564800
OH-1004 ID	LXL04_018807
Relationship / confidence	Multi Source To Oh1004 / Complex relationship
Protein identity (%)	51.000
Protein coverage (%)	TK1151 79.842 / OH-1004 43.864 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 TkA01G564800

Location Chr01:142100320-142103997 (+)

Description Similar to SKIP17: F-box protein SKIP17

Arabidopsis / Rice Reference Genes and Papers

Download references for this gene

Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At4g02760`	F-box protein At4g02760.	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_018807 · 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:0016567 protein ubiquitination Biological Process

GO:0031146 SCF-dependent proteasomal ubiquitin-dependent protein catabolic process Biological Process

GO:0005634 nucleus Cellular Component

GO:0005737 cytoplasm Cellular Component

GO:0005829 cytosol Cellular Component

GO:0019005 SCF ubiquitin ligase complex Cellular Component

GO:1990756 ubiquitin-like ligase-substrate adaptor activity Molecular Function

KEGG gene cross-reference

ath:AT4G02733

ath:AT4G02740

ath:AT4G02760

hsa:84961

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.

Nucleus0.636

Rank 1 · TkA01G564800 · TK1151

Cytoplasm0.356

Rank 2 · TkA01G564800 · TK1151

Cell membrane0.064

Rank 3 · TkA01G564800 · TK1151

Endoplasmic reticulum0.044

Rank 4 · TkA01G564800 · TK1151

Mitochondrion0.042

Rank 5 · TkA01G564800 · 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.

PF29594LRR_SKP26-128 aa

PF23952LRR_EndoS10-32 aa

PF24758LRR_At5g5637011-52 aa

PF12799LRR_432-47 aa

PF23622LRR_At1g61320_AtMIF160-105 aa

PF24758LRR_At5g5637067-105 aa

PF12799LRR_468-82 aa

PF23952LRR_EndoS68-105 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
TkA01G564800	`PF29594`	LRR_SKP2	6	128	0.00045	20.3
TkA01G564800	`PF23952`	LRR_EndoS	10	32	0.0029	18.5
TkA01G564800	`PF24758`	LRR_At5g56370	11	52	0.55	10.6
TkA01G564800	`PF12799`	LRR_4	32	47	0.00034	21.5
TkA01G564800	`PF23622`	LRR_At1g61320_AtMIF1	60	105	0.064	13.3
TkA01G564800	`PF24758`	LRR_At5g56370	67	105	0.55	10.6
TkA01G564800	`PF12799`	LRR_4	68	82	0.00034	21.5
TkA01G564800	`PF23952`	LRR_EndoS	68	105	0.0029	18.5
TkA01G564800	`PF13855`	LRR_8	69	104	0.046	14.2
TkA01G564800	`PF13516`	LRR_6	69	79	0.37	11.6
TkA01G564800	`PF12799`	LRR_4	71	105	0.00034	21.5
TkA01G564800	`PF25013`	LRR_Zer-1	72	114	9.5e-05	23.3
TkA01G564800	`PF25013`	LRR_Zer-1	91	166	9.5e-05	23.3
TkA01G564800	`PF13516`	LRR_6	96	104	0.37	11.6
TkA01G564800	`PF12799`	LRR_4	125	164	0.00034	21.5
TkA01G564800	`PF23952`	LRR_EndoS	131	164	0.0029	18.5

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
`Q9SY03`	Arabidopsis thaliana	sp\|Q9SY03\|FB219_ARATH F-box protein At4g02760	38.600%	Swiss-Prot	Medium

JBrowse

View in Genome Browser

Gene Card