TkA06G068560 | RubberDandelionOmics

Gene overview

TkA06G068560

Reference: TK1151 Chr: Chr06 Coordinates: 18332242-18335722 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1807 bp · TkA06G068560|TK1151|cDNA

AACGAGACTACAGAGTTAACTTGGGGGAAAAGCAGCCCTAATTCCCTGCTGATTGATCCAAGAGCTCGCGATTGCAATATATCTTCTTCCAGGAAAAAATGACTCAGGATGTTGAGATGAAAGAGCAGCAGGTCCCGGCAGCTGCAGCTCCTTCGAATTCCGTTTCATCTACCACTCCTGTTTTACAGCATTTAAAGGAAATTGCCGCACTGATCGAGACGGGAGCTTATGCTCGTGAAGTTCGTCGGATTTTGAGGGCT...

CDS

Download CDS FASTA

1473 bp · TkA06G068560|TK1151|CDS

ATGACTCAGGATGTTGAGATGAAAGAGCAGCAGGTCCCGGCAGCTGCAGCTCCTTCGAATTCCGTTTCATCTACCACTCCTGTTTTACAGCATTTAAAGGAAATTGCCGCACTGATCGAGACGGGAGCTTATGCTCGTGAAGTTCGTCGGATTTTGAGGGCTGTTAGGCTGACAATAGCATTAAGGAGGAAGTTAAAGGCTTCTATAGTTTCTTCGTTCCTCAACGTTGCTCTTGCACCTGGATCCGAAGCACACACTCG...

Protein

Download Protein FASTA

490 aa · TkA06G068560|TK1151|PROTEIN

MTQDVEMKEQQVPAAAAPSNSVSSTTPVLQHLKEIAALIETGAYAREVRRILRAVRLTIALRRKLKASIVSSFLNVALAPGSEAHTRLSSYLPKDDQNDMEVDTASSATQTTVKHSPELEIYCYLLVLIFLIDQKKYSEAKSCSSASIARLKNLNRRTVDVLASRLYFYYSLSYELTGDLSEIRGNLLSLHRVATLRHDELGQETLLNLLLRNYLHYNLYDQAEKLRSKAPRFEAHSNQQFCRYLFYLGKIRTIQLEYTD...

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	`TkA06G068560`
TK1151 ID	TkA06G068560
OH-1004 ID	LXL04_025311
Relationship / confidence	Rbh High Identity Coverage Synteny / Strict
Protein identity (%)	100.000
Protein coverage (%)	TK1151 100.000 / OH-1004 98.196 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 TkA06G068560

Location Chr06:18332242-18335722 (+)

Description Similar to 21D7: Probable 26S proteasome non-ATPase regulatory subunit 3

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At1g20200`	Acts as a regulatory subunit of the 26S proteasome which is involved in the ATP-dependent degradation of ubiquitinated proteins.	No verified direct reference in this release
`At1g75990`	Acts as a regulatory subunit of the 26S proteasome which is involved in the ATP-dependent degradation of ubiquitinated proteins.	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_025311 · 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:0006511 ubiquitin-dependent protein catabolic process Biological Process

GO:0010498 proteasomal protein catabolic process Biological Process

GO:0030163 protein catabolic process Biological Process

GO:0042176 regulation of protein catabolic process Biological Process

GO:0043161 proteasome-mediated ubiquitin-dependent protein catabolic process Biological Process

GO:0000502 proteasome complex Cellular Component

GO:0005634 nucleus Cellular Component

GO:0005654 nucleoplasm Cellular Component

GO:0005739 mitochondrion Cellular Component

GO:0005829 cytosol Cellular Component

GO:0005838 proteasome regulatory particle Cellular Component

GO:0008541 proteasome regulatory particle, lid subcomplex Cellular Component

KEGG gene cross-reference

ath:AT1G20200

ath:AT1G75990

dme:Dmel_CG42641

nta:107767363

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.

Nucleus0.665

Rank 1 · TkA06G068560 · TK1151

Cytoplasm0.421

Rank 2 · TkA06G068560 · TK1151

Lysosome / Vacuole0.045

Rank 3 · TkA06G068560 · TK1151

Golgi apparatus0.044

Rank 4 · TkA06G068560 · TK1151

Endoplasmic reticulum0.041

Rank 5 · TkA06G068560 · 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.

PF10075CSN8_PSD8_EIF3K20-46 aa

PF25573TPR_PSMD3_N26-319 aa

PF07719TPR_2132-143 aa

PF07719TPR_2165-182 aa

PF07719TPR_2243-273 aa

PF17344DUF5374277-297 aa

PF01399PCI338-419 aa

PF10075CSN8_PSD8_EIF3K342-420 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
TkA06G068560	`PF10075`	CSN8_PSD8_EIF3K	20	46	0.056	14.1
TkA06G068560	`PF25573`	TPR_PSMD3_N	26	319	1.9e-107	360.1
TkA06G068560	`PF07719`	TPR_2	132	143	0.62	11.0
TkA06G068560	`PF07719`	TPR_2	165	182	0.62	11.0
TkA06G068560	`PF07719`	TPR_2	243	273	0.62	11.0
TkA06G068560	`PF17344`	DUF5374	277	297	0.2	12.2
TkA06G068560	`PF01399`	PCI	338	419	2.8e-19	69.8
TkA06G068560	`PF10075`	CSN8_PSD8_EIF3K	342	420	0.056	14.1
TkA06G068560	`PF08375`	Rpn3_C	423	489	3.3e-27	95.4
TkA06G068560	`PF07719`	TPR_2	437	452	0.62	11.0

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.

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Protein	Organism	Description	Identity	Database	Confidence
`Q9LNU4`	Arabidopsis thaliana	sp\|Q9LNU4\|PSD3A_ARATH 26S proteasome non-ATPase regulatory subunit 3 homolog A	82.400%	Swiss-Prot	High
`Q9LQR8`	Arabidopsis thaliana	sp\|Q9LQR8\|PSD3B_ARATH 26S proteasome non-ATPase regulatory subunit 3 homolog B	81.700%	Swiss-Prot	High

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