TkA05G020180 | RubberDandelionOmics

Gene overview

TkA05G020180

Reference: TK1151 Chr: Chr05 Coordinates: 5511710-5512437 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

330 bp · TkA05G020180|TK1151|cDNA

ATGTTGTATTTCAATGAAGAATCAAGATCTCCTTTTGTAAAGAAGTTTAAAACCATAATTCATCCTGGAGAGGTCAATCGCATCAGGGAGCTTCCTCAAAACAACAAAATTGTAGCCACACACACAGACAGTCCTGATGTTCTTATTTGGGATGTTGAAGCTCAGCCCAATCGCCATGCTATCCTGGGAGCCACAGAGTCCCGTCCTGATCTGATCTTGACTGGTCATCAAGAAAAAGCAGAAGTTGCTCTTGCTATGTG...

CDS

Download CDS FASTA

330 bp · TkA05G020180|TK1151|CDS

ATGTTGTATTTCAATGAAGAATCAAGATCTCCTTTTGTAAAGAAGTTTAAAACCATAATTCATCCTGGAGAGGTCAATCGCATCAGGGAGCTTCCTCAAAACAACAAAATTGTAGCCACACACACAGACAGTCCTGATGTTCTTATTTGGGATGTTGAAGCTCAGCCCAATCGCCATGCTATCCTGGGAGCCACAGAGTCCCGTCCTGATCTGATCTTGACTGGTCATCAAGAAAAAGCAGAAGTTGCTCTTGCTATGTG...

Protein

Download Protein FASTA

109 aa · TkA05G020180|TK1151|PROTEIN

MLYFNEESRSPFVKKFKTIIHPGEVNRIRELPQNNKIVATHTDSPDVLIWDVEAQPNRHAILGATESRPDLILTGHQEKAEVALAMCQSEPFVPSGGDVLQNHAINYSV

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	`TkA05G020180`
TK1151 ID	TkA05G020180
OH-1004 ID	LXL04_019116
Relationship / confidence	Sequence Supported Annotation Or Model Conflict / Review
Protein identity (%)	96.800
Protein coverage (%)	TK1151 87.156 / OH-1004 44.186 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 TkA05G020180

Location Chr05:5511710-5512437 (+)

Description Similar to MSI4: WD-40 repeat-containing protein MSI4

Arabidopsis / Rice Reference Genes and Papers

Download references for this gene

Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At2g19520`	Core histone-binding subunit that may target chromatin assembly factors, chromatin remodeling factors and histone deacetylases to their histone substrates in a manner that is regulated by nucleosomal DNA.	Regulation of flowering time by FVE, a retinoblastoma-associated protein.2004 · DOI: 10.1038/ng1295 A genetic link between cold responses and flowering time through FVE in Arabidopsis thaliana.2004 · DOI: 10.1038/ng1298
`At4g29730`	Core histone-binding subunit that may target chromatin assembly factors, chromatin remodeling factors and histone deacetylases to their histone substrates in a manner that is regulated by nucleosomal DNA (By similarity).	Arabidopsis PWWP domain proteins mediate H3K27 trimethylation on FLC and regulate flowering time.2018 · DOI: 10.1111/jipb.12630

Rice

No hit for this species in the current source table.

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_019116 · 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:0006260 DNA replication Biological Process

GO:0006281 DNA repair Biological Process

GO:0006310 DNA recombination Biological Process

GO:0006338 chromatin remodeling Biological Process

GO:0006351 DNA-templated transcription Biological Process

GO:0006355 regulation of DNA-templated transcription Biological Process

GO:0009627 systemic acquired resistance Biological Process

GO:0009908 flower development Biological Process

GO:0010224 response to UV-B Biological Process

GO:0010629 negative regulation of gene expression Biological Process

GO:0030154 cell differentiation Biological Process

GO:0040029 epigenetic regulation of gene expression Biological Process

KEGG gene cross-reference

ath:AT2G19520

ath:AT4G29730

dosa:Os03g0640100

sly:543534

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.

Nucleus0.518

Rank 1 · TkA05G020180 · TK1151

Cytoplasm0.396

Rank 2 · TkA05G020180 · TK1151

Cell membrane0.085

Rank 3 · TkA05G020180 · TK1151

Endoplasmic reticulum0.059

Rank 4 · TkA05G020180 · TK1151

Mitochondrion0.054

Rank 5 · TkA05G020180 · 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.

PF25174Beta-prop_THOC317-61 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
TkA05G020180	`PF25174`	Beta-prop_THOC3	17	61	0.13	12.0

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
`O22607`	Arabidopsis thaliana	sp\|O22607\|MSI4_ARATH WD-40 repeat-containing protein MSI4	86.200%	Swiss-Prot	High
`Q9SU78`	Arabidopsis thaliana	sp\|Q9SU78\|MSI5_ARATH WD-40 repeat-containing protein MSI5	76.300%	Swiss-Prot	High

JBrowse

View in Genome Browser

Gene Card