TkAUNG085460 | RubberDandelionOmics

Gene overview

TkAUNG085460

Reference: TK1151 Chr: ChrUn Coordinates: 24277701-24284176 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

2938 bp · TkAUNG085460|TK1151|cDNA

AAAAACCACATCTATTCTTTTAATTTAAATTTCCATCGCTACTATAAAACCACAATATATATACTGAAAAAAATTATAGAACTAGTGTCATGTAAATTCAATTACAATTACTTCCACAATACAAAAAAAAAAGAAATTCTTCACCTCTTCGTTTCTCTTCTCTCAAACTGGTTTTGTTTTTGCTAAAACAAAACCAGACTTCGATCTAAAGGAACCACAACTTGTTTGATTTTGATTTCATTCGGTGCTTAGATCTTCCC...

CDS

Download CDS FASTA

1245 bp · TkAUNG085460|TK1151|CDS

ATGAATCGTATTGAAAAAAGGAAATCTGAAGATGTTGGAGTCCATTCAGGTTCGGGTACTCCATATGCTGATAATAATGACCTAAGAAGTATGTACAGTGAGGAATTTAATTTCTGTGAGAAAGTGAAGGATAGGTTAAATAATCTAGAGGATTATCAAGCTTTCTTGAAGTGTCTTCATATCTATAACACTGAAATAATTACAAGAAAGGAGTTACAAAGCTTGGTTTCTGATCTACTTGGAAAGCACCCGGATCTCAT...

Protein

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415 aa · TkAUNG085460|TK1151|PROTEIN

MNRIEKRKSEDVGVHSGSGTPYADNNDLRSMYSEEFNFCEKVKDRLNNLEDYQAFLKCLHIYNTEIITRKELQSLVSDLLGKHPDLMEGFTTFLGRENIDGFLAGVMDKKSLWSEGHGSKSTRADDKEREHNNNAAKEDKYKEKYWAKSIQELDLSDCQRCTPSYRLLPDDYPIPSVSQRSELGTQVLNDLWVSVTSGSEDYSFKHMRRNQYEESLFRCEDDRFELDMLLESVSSTAKRAEELLNNINNKTISPDTPIRI...

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	`TkAUNG085460`
TK1151 ID	TkAUNG085460
OH-1004 ID	LXL04_006191
Relationship / confidence	Sequence Supported Annotation Or Model Conflict / Review
Protein identity (%)	100.000
Protein coverage (%)	TK1151 100.000 / OH-1004 32.246 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

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Basic Information and Functional Annotation

Gene ID TkAUNG085460

Location ChrUn:24277701-24284176 (-)

Description Similar to SNL2: Paired amphipathic helix protein Sin3-like 2

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At5g15020`	Acts as a transcriptional repressor.	No verified direct reference in this release
`At3g01320`	Acts as a transcriptional repressor.	PAH-domain-specific interactions of the Arabidopsis transcription coregulator SIN3-LIKE1 (SNL1) with telomere-binding protein 1 and ALWAYS EARLY2 Myb-DNA binding factors.2010 · DOI: 10.1016/j.jmb.2009.11.065
`At1g70060`	Acts as a transcriptional repressor.	No verified direct reference in this release
`At1g24190`	Acts as a transcriptional repressor.	Role of an Arabidopsis AP2/EREBP-type transcriptional repressor in abscisic acid and drought stress responses.2005 · DOI: 10.1105/tpc.105.033043
`At1g59890`	Acts as a transcriptional repressor.	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_006191 · 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:0000122 negative regulation of transcription by RNA polymerase II Biological Process

GO:0006351 DNA-templated transcription Biological Process

GO:0045892 negative regulation of DNA-templated transcription Biological Process

GO:0000118 histone deacetylase complex Cellular Component

GO:0000785 chromatin Cellular Component

GO:0005634 nucleus Cellular Component

GO:0070822 Sin3-type complex Cellular Component

GO:0003714 transcription corepressor activity Molecular Function

KEGG gene cross-reference

ath:AT1G70060

ath:AT3G01320

ath:AT5G15020

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.

Nucleus0.820

Rank 1 · TkAUNG085460 · TK1151

Cytoplasm0.226

Rank 2 · TkAUNG085460 · TK1151

Cell membrane0.050

Rank 3 · TkAUNG085460 · TK1151

Endoplasmic reticulum0.021

Rank 4 · TkAUNG085460 · TK1151

Mitochondrion0.020

Rank 5 · TkAUNG085460 · TK1151

LocPro · Direct prediction · Computational prediction, not experimental localization

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Predicted Functional Domains

Domain results are from Pfam-A/HMMER; positions are amino-acid coordinates on the protein sequence.

PF18688DUF563827-76 aa

PF25972At4g15545_C38-96 aa

PF15188CCDC-16748-56 aa

PF02671PAH50-94 aa

PF08295Sin3_corepress159-251 aa

PF15188CCDC-167225-255 aa

PF18688DUF5638228-261 aa

PF15188CCDC-167326-381 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
TkAUNG085460	`PF18688`	DUF5638	27	76	0.45	11.7
TkAUNG085460	`PF25972`	At4g15545_C	38	96	0.004	17.8
TkAUNG085460	`PF15188`	CCDC-167	48	56	0.25	12.4
TkAUNG085460	`PF02671`	PAH	50	94	4.2e-17	62.3
TkAUNG085460	`PF08295`	Sin3_corepress	159	251	6.4e-35	119.8
TkAUNG085460	`PF15188`	CCDC-167	225	255	0.25	12.4
TkAUNG085460	`PF18688`	DUF5638	228	261	0.45	11.7
TkAUNG085460	`PF15188`	CCDC-167	326	381	0.25	12.4
TkAUNG085460	`PF02671`	PAH	342	358	4.2e-17	62.3
TkAUNG085460	`PF18688`	DUF5638	350	375	0.45	11.7
TkAUNG085460	`PF25972`	At4g15545_C	351	373	0.004	17.8

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.

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Protein	Organism	Description	Identity	Database	Confidence
`Q9LFQ3`	Arabidopsis thaliana	sp\|Q9LFQ3\|SNL2_ARATH Paired amphipathic helix protein Sin3-like 2	65.300%	Swiss-Prot	High
`Q9SRH9`	Arabidopsis thaliana	sp\|Q9SRH9\|SNL1_ARATH Paired amphipathic helix protein Sin3-like 1	64.000%	Swiss-Prot	High
`O04539`	Arabidopsis thaliana	sp\|O04539\|SNL4_ARATH Paired amphipathic helix protein Sin3-like 4	56.800%	Swiss-Prot	High
`O48686`	Arabidopsis thaliana	sp\|O48686\|SNL3_ARATH Paired amphipathic helix protein Sin3-like 3	55.600%	Swiss-Prot	High
`Q9XIE1`	Arabidopsis thaliana	sp\|Q9XIE1\|SNL5_ARATH Paired amphipathic helix protein Sin3-like 5	67.000%	Swiss-Prot	Medium

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