TkAUNG013110 | RubberDandelionOmics

Gene overview

TkAUNG013110

Reference: TK1151 Chr: ChrUn Coordinates: 3337969-3340473 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

2090 bp · TkAUNG013110|TK1151|cDNA

GCCCATAAATGCAAATATCTTCAAACAATTTAGTACGAAAGAAGGAAACACTCGCTAAAACCTTATCCAATCCCAAAACCCCAAGAGAACCTCCATTATCGACCACTATGCTCCCTCGAGTTTTGAATTCAATCTCTCAACGATCTTGATTTCTTATTAACGTGATTCAAAACTCGATAGTCGATACCAGTTTCTGATATCCTTAGCCGATGGAGCTTTCTTCCCCATTAATACCCTCAAATTCAAACGTCTTTCACCGG...

CDS

Download CDS FASTA

1623 bp · TkAUNG013110|TK1151|CDS

ATGGAGCTTTCTTCCCCATTAATACCCTCAAATTCAAACGTCTTTCACCGGTCCCATGACCTCTCTTTCTCCTCCTCCATTTCACCTTTCCCGGTTAAATCCCCCTTCCAAAAACATAAATTCCGAAAATCAATTACGCTAAATCCCGCAATTTTTGCTGTCGTGGACTCCCAGGAGAAACAGGAACAACTCCCTCAAAACAGCCCACAAAGACTACTCAAAGAGCTCTCCAAAAGCAAACAATTCGTTTCTCCCAAGAG...

Protein

Download Protein FASTA

540 aa · TkAUNG013110|TK1151|PROTEIN

MELSSPLIPSNSNVFHRSHDLSFSSSISPFPVKSPFQKHKFRKSITLNPAIFAVVDSQEKQEQLPQNSPQRLLKELSKSKQFVSPKRRVPPKRFILKPPLDDAKLAQRFLNSPQLSLKQFPLLSSCLPSMRLNNADKIWIDEYLLEAKQALGYPLEPSENYGDDNPAKQFDTLLYLAFGHPHCERTNARHVRSGHSRLGFLGQYVLEMAMAEFFLQRYPRESPGPMRERVYALIGKRYLPKWVKAASLHNLIFQYDDMDK...

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	`TkAUNG013110`
TK1151 ID	TkAUNG013110
OH-1004 ID	LXL04_013601
Relationship / confidence	Rbh High Identity Coverage Local Synteny Minor Chr Pair / Probable
Protein identity (%)	99.600
Protein coverage (%)	TK1151 100.000 / OH-1004 100.000 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 TkAUNG013110

Location ChrUn:3337969-3340473 (+)

Description Similar to RNC1: Ribonuclease III domain-containing protein RNC1, chloroplastic

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At4g37510`	Binds specific group II introns in chloroplasts and facilitates their splicing.	No verified direct reference in this release

Rice

Reference gene ID	Possible function	Papers / DOI
`Os01g0810100`	Binds specific group II introns in chloroplasts and facilitates their splicing.	No verified direct reference in this release

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_013601 · 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:0000373 Group II intron splicing Biological Process

GO:0006364 rRNA processing Biological Process

GO:0006396 RNA processing Biological Process

GO:0006397 mRNA processing Biological Process

GO:0008033 tRNA processing Biological Process

GO:0008380 RNA splicing Biological Process

GO:0010468 regulation of gene expression Biological Process

GO:0042254 ribosome biogenesis Biological Process

GO:0005634 nucleus Cellular Component

GO:0005737 cytoplasm Cellular Component

GO:0009507 chloroplast Cellular Component

GO:0009570 chloroplast stroma Cellular Component

KEGG gene cross-reference

ath:AT4G37510

dosa:Os01g0810100

gka:GK1192

gtn:GTNG_1045

zma:100125654

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.

Plastid0.874

Rank 1 · TkAUNG013110 · TK1151

Mitochondrion0.103

Rank 2 · TkAUNG013110 · TK1151

Nucleus0.055

Rank 3 · TkAUNG013110 · TK1151

Cytoplasm0.053

Rank 4 · TkAUNG013110 · TK1151

Cell membrane0.031

Rank 5 · TkAUNG013110 · 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.

PF14622Ribonucleas_3_3194-293 aa

PF00636Ribonuclease_3197-284 aa

PF14622Ribonucleas_3_3406-510 aa

PF00636Ribonuclease_3425-499 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
TkAUNG013110	`PF14622`	Ribonucleas_3_3	194	293	1.1e-13	52.2
TkAUNG013110	`PF00636`	Ribonuclease_3	197	284	1.3e-13	52.3
TkAUNG013110	`PF14622`	Ribonucleas_3_3	406	510	1.1e-13	52.2
TkAUNG013110	`PF00636`	Ribonuclease_3	425	499	1.3e-13	52.3

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
`Q9SZV0`	Arabidopsis thaliana	sp\|Q9SZV0\|RNC1_ARATH Ribonuclease III domain-containing protein RNC1, chloroplastic	79.100%	Swiss-Prot	High
`Q8S1Z0`	Oryza sativa subsp. japonica	sp\|Q8S1Z0\|RNC1_ORYSJ Ribonuclease III domain-containing protein RNC1, chloroplastic	78.800%	Swiss-Prot	High

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