TkA02G519410 | RubberDandelionOmics

Gene overview

TkA02G519410

Reference: TK1151 Chr: Chr02 Coordinates: 133869619-133871739 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1085 bp · TkA02G519410|TK1151|cDNA

CGAGGGAACGCCTTGAAGCCGACGGGGAGAGGAAAGAAAGCGGAAGGGTCCTTGTACGACATACGATTCATAATCATGGCCGCCAAAGGTGGAGCAGCTCCGGCGACGTACTCACCGTCCCCAACAACCTATAAGAAGAAGAGAACTCCCATTTTCACCGACGTTGATTGGGTACGGCCCGACGGTCGCGATTTCCACCAGTGTAGACCTGCATTTCTAAGAACCGGAGCAGTAAATGCAGCATCAGGATCTGCTTATGC...

CDS

Download CDS FASTA

768 bp · TkA02G519410|TK1151|CDS

ATGGCCGCCAAAGGTGGAGCAGCTCCGGCGACGTACTCACCGTCCCCAACAACCTATAAGAAGAAGAGAACTCCCATTTTCACCGACGTTGATTGGGTACGGCCCGACGGTCGCGATTTCCACCAGTGTAGACCTGCATTTCTAAGAACCGGAGCAGTAAATGCAGCATCAGGATCTGCTTATGCAGAGTTTGGTAACACTAAGGTCATCGTGTCTATATTTGGTCCCAGGGAAAGTAAGAAAGCATTGATGTATAGTGA...

Protein

Download Protein FASTA

255 aa · TkA02G519410|TK1151|PROTEIN

MAAKGGAAPATYSPSPTTYKKKRTPIFTDVDWVRPDGRDFHQCRPAFLRTGAVNAASGSAYAEFGNTKVIVSIFGPRESKKALMYSDTGRLNCNVSYTTFATPVRGQASDNKEISSQLHKSLEGAIMLDTFPKTTVDVFALVLESGGCDLPVVISCASLALADAGIMMYDLVAAVSVSCLGKNLVIDPVSEEENYQDGSLTITCLPSRNEVTQLTITGEWSSPKIHEGMELCLDACAKLGKIMRSCLKESASTSQ

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	`TkA02G519410`
TK1151 ID	TkA02G519410
OH-1004 ID	LXL04_013061
Relationship / confidence	Multi Source To Oh1004 / Complex relationship
Protein identity (%)	98.800
Protein coverage (%)	TK1151 100.000 / OH-1004 99.609 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

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Basic Information and Functional Annotation

Gene ID TkA02G519410

Location Chr02:133869619-133871739 (+)

Description Similar to RRP41L: Exosome complex component RRP41-like

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At4g27490`	Non-catalytic component of the RNA exosome complex which has 3'->5' exoribonuclease activity and participates in a multitude of cellular RNA processing, maturation and degradation events.	RRP41L, a putative core subunit of the exosome, plays an important role in seed germination and early seedling growth in Arabidopsis.2013 · DOI: 10.1104/pp.112.206706

Rice

No hit for this species in the current source table.

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_013061 · 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:0000956 nuclear-transcribed mRNA catabolic process Biological Process

GO:0006364 rRNA processing Biological Process

GO:0009845 seed germination Biological Process

GO:0010467 gene expression Biological Process

GO:0016075 rRNA catabolic process Biological Process

GO:0034475 U4 snRNA 3'-end processing Biological Process

GO:0071028 nuclear mRNA surveillance Biological Process

GO:0071051 poly(A)-dependent snoRNA 3'-end processing Biological Process

GO:0090351 seedling development Biological Process

GO:0000176 nuclear exosome (RNase complex) Cellular Component

GO:0000177 cytoplasmic exosome (RNase complex) Cellular Component

GO:0000178 exosome (RNase complex) Cellular Component

KEGG gene cross-reference

ath:AT4G27490

dre:326786

pfu:PF1568

pho:PH1549

xtr:549770

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.

Nucleus0.680

Rank 1 · TkA02G519410 · TK1151

Cytoplasm0.504

Rank 2 · TkA02G519410 · TK1151

Mitochondrion0.077

Rank 3 · TkA02G519410 · TK1151

Cell membrane0.030

Rank 4 · TkA02G519410 · TK1151

Endoplasmic reticulum0.026

Rank 5 · TkA02G519410 · 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.

PF01138RNase_PH42-166 aa

PF03725RNase_PH_C147-156 aa

PF03725RNase_PH_C170-231 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
TkA02G519410	`PF01138`	RNase_PH	42	166	7.5e-30	104.7
TkA02G519410	`PF03725`	RNase_PH_C	147	156	8.3e-10	39.2
TkA02G519410	`PF03725`	RNase_PH_C	170	231	8.3e-10	39.2

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
`A2RVK7`	Arabidopsis thaliana	sp\|A2RVK7\|RP41L_ARATH Exosome complex component RRP41-like	73.000%	Swiss-Prot	High

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