TkA05G069420 | RubberDandelionOmics

Gene overview

TkA05G069420

Reference: TK1151 Chr: Chr05 Coordinates: 18597596-18598881 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1103 bp · TkA05G069420|TK1151|cDNA

CTAGAAATTATGATAACTGCCAATAACTTTCGTTGACTTGGAATACTCCAACAACTGTAAGTCGGAGTCTCGATGACAAAAGTCCAAATTGAACACATACGATCGCACTATATCCATCGATTTTCAATTTTTCATCTTCATCGTTATAATCACCTCCCAATTCGAACATGTCTCGTAGTTTCGGTAATCCGGAAGTCATCACCAAGCTCCTTATTTTGATCTCGATTTCTGTGTTTACGGTTTCCTCCCGCCCTATCGTC...

CDS

Download CDS FASTA

597 bp · TkA05G069420|TK1151|CDS

ATGTCTCGTAGTTTCGGTAATCCGGAAGTCATCACCAAGCTCCTTATTTTGATCTCGATTTCTGTGTTTACGGTTTCCTCCCGCCCTATCGTCAGCAATCCAGATGACGTTGCTACGAGGCCATCGGAGAAGACCTTTGTTTTAAAGAGCTCCGATGGAGTGAAATTCGAGGTGCAATTACAGGTGGCTCTGCAATCGGATGCAATTAGGCAAATGATTGTCGACGGAGGCTTCTCCGATAAGATGGTATTATCTTTTCC...

Protein

Download Protein FASTA

198 aa · TkA05G069420|TK1151|PROTEIN

MSRSFGNPEVITKLLILISISVFTVSSRPIVSNPDDVATRPSEKTFVLKSSDGVKFEVQLQVALQSDAIRQMIVDGGFSDKMVLSFPNITGEIMAKVLEYCNKHVYYAGAVNNITAMEEMRAYDTQFVDVHYETLFKLVLASDELKIKSLLDLVSGKIANMIKGKEVEEIRDMFNVKQGSCVDHSTKQDYLRENAWAF

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	`TkA05G069420`
TK1151 ID	TkA05G069420
OH-1004 ID	LXL04_019625
Relationship / confidence	Rbh High Identity Coverage Synteny / Strict
Protein identity (%)	100.000
Protein coverage (%)	TK1151 100.000 / OH-1004 100.000 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 TkA05G069420

Location Chr05:18597596-18598881 (-)

Description Similar to SKP1A: SKP1-like protein 1A

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At1g75950`	Involved in ubiquitination and subsequent proteasomal degradation of target proteins.	The Arabidopsis SKP1-LIKE1 gene is essential for male meiosis and may control homologue separation.1999 · DOI: 10.1073/pnas.96.20.11416 The ASK1 gene regulates development and interacts with the UFO gene to control floral organ identity in Arabidopsis.1999 · DOI: 10.1002/(sici)1520-6408(1999)25:3<209::aid-dvg4>3.0.co;2-o The ASK1 gene regulates B function gene expression in cooperation with UFO and LEAFY in Arabidopsis.2001 · DOI: 10.1242/dev.128.14.2735 Members of the Arabidopsis-SKP1-like gene family exhibit a variety of expression patterns and may play diverse roles in Arabidopsis.2003 · DOI: 10.1104/pp.103.024703 The ASK1 and ASK2 genes are essential for Arabidopsis early development.2004 · DOI: 10.1105/tpc.017772
`At1g20140`	Involved in ubiquitination and subsequent proteasomal degradation of target proteins.	No verified direct reference in this release
`At2g25700`	Involved in ubiquitination and subsequent proteasomal degradation of target proteins.	No verified direct reference in this release
`At3g21850`	Involved in ubiquitination and subsequent proteasomal degradation of target proteins.	No verified direct reference in this release

Rice

Reference gene ID	Possible function	Papers / DOI
`Os09g0274700`	Involved in ubiquitination and subsequent proteasomal degradation of target proteins.	No verified direct reference in this release

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_019625 · 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:0000226 microtubule cytoskeleton organization Biological Process

GO:0000278 mitotic cell cycle Biological Process

GO:0006511 ubiquitin-dependent protein catabolic process Biological Process

GO:0007059 chromosome segregation Biological Process

GO:0007140 male meiotic nuclear division Biological Process

GO:0009733 response to auxin Biological Process

GO:0009734 auxin-activated signaling pathway Biological Process

GO:0009753 response to jasmonic acid Biological Process

GO:0009867 jasmonic acid mediated signaling pathway Biological Process

GO:0009873 ethylene-activated signaling pathway Biological Process

GO:0016567 protein ubiquitination Biological Process

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

KEGG gene cross-reference

ath:AT1G20140

ath:AT1G75950

ath:AT2G25700

ath:AT4G34210

ath:AT4G34470

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.

Cytoplasm0.423

Rank 1 · TkA05G069420 · TK1151

Nucleus0.252

Rank 2 · TkA05G069420 · TK1151

Endoplasmic reticulum0.151

Rank 3 · TkA05G069420 · TK1151

Extracellular0.115

Rank 4 · TkA05G069420 · TK1151

Cell membrane0.113

Rank 5 · TkA05G069420 · 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.

PF03931Skp1_POZ45-105 aa

PF01466Skp1117-122 aa

PF01466Skp1148-179 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
TkA05G069420	`PF03931`	Skp1_POZ	45	105	9.9e-17	61.6
TkA05G069420	`PF01466`	Skp1	117	122	5.4e-11	42.9
TkA05G069420	`PF01466`	Skp1	148	179	5.4e-11	42.9

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
`Q39255`	Arabidopsis thaliana	sp\|Q39255\|SKP1A_ARATH SKP1-like protein 1A	43.800%	Swiss-Prot	Medium
`Q9LNT9`	Arabidopsis thaliana	sp\|Q9LNT9\|ASK4_ARATH SKP1-like protein 4	38.100%	Swiss-Prot	Medium
`Q9SL93`	Arabidopsis thaliana	sp\|Q9SL93\|ASK3_ARATH SKP1-like protein 3	38.000%	Swiss-Prot	Medium
`Q9LSX9`	Arabidopsis thaliana	sp\|Q9LSX9\|ASK9_ARATH SKP1-like protein 9	36.900%	Swiss-Prot	Medium
`Q6H4D6`	Oryza sativa subsp. japonica	sp\|Q6H4D6\|SKP5_ORYSJ SKP1-like protein 5	38.500%	Swiss-Prot	Medium

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