TkA01G611280 | RubberDandelionOmics

Gene overview

TkA01G611280

Reference: TK1151 Chr: Chr01 Coordinates: 154128146-154131258 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

2181 bp · TkA01G611280|TK1151|cDNA

ATTCAATATACAACTCATATATAAACACGACATATGATACGAATAAATTTAGACGAGAGTACCATACGAAGAAATATAGACGAAAGACGCGATTGAAAAGTGCGTCTTCTTCTTCTTTGTTGTGTTTGTAAAACCTAAGAAAGAACACCCAAATCAGACCGATCTCCTTTTATTTCTCTCTCTTAATTCCATCTCAAGTCAATCACACCCCGGTTTCCTGAACTTCTCTCTTTTCCAAAAATTCTTCATCTTCTGATCAA...

CDS

Download CDS FASTA

927 bp · TkA01G611280|TK1151|CDS

ATGCTGAGCGTGCTGAGAGTGCACCTCCCGTCCGATATTCCGATTGTGGGTTGCGAGCTTTCGCCCTACGTGCTTCTCCGCCGTCCCGACCAAACTGTCTTCACCGACGATGTACCAGAATCCTCACCTATTGAGGGCCATTTCTTAAGATACAAGTGGTACCGCATACAAAGCGACAAAAAAGTTGCTATTTGTAGCATCCATCCATCCGAGCAAGCAACTCTCCAATGTCTAGGATGCGTGAAAGCCAAAATCCCAAT...

Protein

Download Protein FASTA

308 aa · TkA01G611280|TK1151|PROTEIN

MLSVLRVHLPSDIPIVGCELSPYVLLRRPDQTVFTDDVPESSPIEGHFLRYKWYRIQSDKKVAICSIHPSEQATLQCLGCVKAKIPIAKSYHCSPKCFSDAWQHHRVLHERAASAVNENGNEEEEIFGRFNNNNNTNTNNNQSLSTSQSLPTLTNGATTPLYPAAVTQRSGGETWFEVGRAKTYTPTADDIGHVLKFECVVVDADTKSPVGHANTILTSRVIPAPSPSPRKLISVSNADMAGHLDVDGRLSSTDKICCGK...

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	`TkA01G611280`
TK1151 ID	TkA01G611280
OH-1004 ID	LXL04_000443
Relationship / confidence	Non Reciprocal Best Hit / Complex relationship
Protein identity (%)	99.200
Protein coverage (%)	TK1151 82.143 / OH-1004 33.910 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 TkA01G611280

Location Chr01:154128146-154131258 (+)

Description Similar to CCR4-1: Carbon catabolite repressor protein 4 homolog 1

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At3g58560`	Acts as a catalytic component of the CCR4-NOT core complex, which in the nucleus seems to be a general transcription factor, and in the cytoplasm the major mRNA deadenylase involved in mRNA turnover.	No verified direct reference in this release
`At3g58580`	Acts as a catalytic component of the CCR4-NOT core complex, which in the nucleus seems to be a general transcription factor, and in the cytoplasm the major mRNA deadenylase involved in mRNA turnover.	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_000443 · 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:0000076 DNA replication checkpoint signaling Biological Process

GO:0000289 nuclear-transcribed mRNA poly(A) tail shortening Biological Process

GO:0005986 sucrose biosynthetic process Biological Process

GO:0006260 DNA replication Biological Process

GO:0006351 DNA-templated transcription Biological Process

GO:0006368 transcription elongation by RNA polymerase II Biological Process

GO:0006397 mRNA processing Biological Process

GO:0006417 regulation of translation Biological Process

GO:0007089 traversing start control point of mitotic cell cycle Biological Process

GO:0010629 negative regulation of gene expression Biological Process

GO:0019252 starch biosynthetic process Biological Process

GO:0031047 regulatory ncRNA-mediated gene silencing Biological Process

KEGG gene cross-reference

ath:AT3G58560

ath:AT3G58580

dre:553665

spo:2538913

uma:UMAG_10379

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.

Cytoplasm0.446

Rank 1 · TkA01G611280 · TK1151

Nucleus0.367

Rank 2 · TkA01G611280 · TK1151

Mitochondrion0.112

Rank 3 · TkA01G611280 · TK1151

Cell membrane0.091

Rank 4 · TkA01G611280 · TK1151

Golgi apparatus0.072

Rank 5 · TkA01G611280 · 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.

PF23197IG_AIR951-62 aa

PF01753zf-MYND71-107 aa

PF15801zf-C6H272-110 aa

PF23197IG_AIR9167-208 aa

PF21171PDE12-like_N168-201 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
TkA01G611280	`PF23197`	IG_AIR9	51	62	0.00036	21.0
TkA01G611280	`PF01753`	zf-MYND	71	107	1.1	10.1
TkA01G611280	`PF15801`	zf-C6H2	72	110	1e-06	29.5
TkA01G611280	`PF23197`	IG_AIR9	167	208	0.00036	21.0
TkA01G611280	`PF21171`	PDE12-like_N	168	201	0.098	13.4

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
`Q8W0Z9`	Arabidopsis thaliana	sp\|Q8W0Z9\|CCR4A_ARATH Carbon catabolite repressor protein 4 homolog 1	70.500%	Swiss-Prot	High
`Q9M2F8`	Arabidopsis thaliana	sp\|Q9M2F8\|CCR4B_ARATH Carbon catabolite repressor protein 4 homolog 2	64.300%	Swiss-Prot	High

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