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Gene Card

Enter a TK1151 or OH-1004 gene ID to view sequences, annotations and analyses in the corresponding reference genome.
Flanking length, max 10000 bp
Examples TkA01G624900 LXL04_000258

Gene overview

TkA04G268630
Reference: TK1151 Chr: Chr04 Coordinates: 67881507-67884347 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

Download cDNA FASTA

1427 bp · TkA04G268630|TK1151|cDNA

AGAGAATCGAGGAGCTTAGTATCGAGTTTAGAGAACTTATTGAACACAACAGAAGTTTAAACACACGTAAAAGGTGAATCCAGTTCAAAAAAATCTTACAAGTTAAAGCCAAGCCATGTCGACCGTAATTTCCAATTCAAAAAAGAGAAAAACGTTACGCGAACCACAATCCCAAAAAATCGTGCACACATACAACATCGACATCGACAGCGATGATGTGGTCTCCGACGCAAGTCAAACATCGGGTCAATGCGCAACAA...

CDS

Download CDS FASTA

1158 bp · TkA04G268630|TK1151|CDS

ATGTCGACCGTAATTTCCAATTCAAAAAAGAGAAAAACGTTACGCGAACCACAATCCCAAAAAATCGTGCACACATACAACATCGACATCGACAGCGATGATGTGGTCTCCGACGCAAGTCAAACATCGGGTCAATGCGCAACAAACATGGCCGATTCCATCACGGCGGTAGAATCCATCTTAATGTACGATTTCAAAAACAAAAGCTTATTAGAAGCTGCTTTAACGCATTCTTCATACACCGAGAGCCCCTCATACCA...

Protein

Download Protein FASTA

385 aa · TkA04G268630|TK1151|PROTEIN

MSTVISNSKKRKTLREPQSQKIVHTYNIDIDSDDVVSDASQTSGQCATNMADSITAVESILMYDFKNKSLLEAALTHSSYTESPSYQRHEFVGDAVLGLAITDFFDLAYPDLDPGQLSLLRAANISTEKLARVAVRNGLYKYVRHNTTVLNDKVREFVIAVEEEDDIVVHGGQMKAPKVLADIVESIVGAVYADCGRDLQSLWVIIKDLLEPIIMLNVLEKQPQPITVLFEACQKEGKTVDIQHWRKGERNIASVYIDGK...

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.

Download Gene (CDS) Download Protein

ID Mapping

Input IDTkA04G268630
TK1151 IDTkA04G268630
OH-1004 IDLXL04_037291
Relationship / confidenceMulti Candidate From Tk1151 / Complex relationship
Protein identity (%)100.000
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 versionTK1151 / GWHBCHF00000000
Open Full ID Mapping
SNP / Indel variants and carrier samplesCRA009020 · TK1151

Expand to load variant records for this gene.

Basic Information and Functional Annotation

Gene IDTkA04G268630
LocationChr04:67881507-67884347 (+)
DescriptionSimilar to RTL2: Ribonuclease 3-like protein 2
Arabidopsis / Rice Reference Genes and Papers

Download references for this gene

Arabidopsis

Reference gene IDPossible functionPapers / DOI
At3g20420 Ribonuclease that cleaves double-stranded RNA (dsRNA).
Characterization of a ribonuclease III-like protein required for cleavage of the pre-rRNA in the 3'ETS in Arabidopsis.2008 · DOI: 10.1093/nar/gkm1130
An Arabidopsis RNase III-like protein, AtRTL2, cleaves double-stranded RNA in vitro.2011 · DOI: 10.1007/s10265-010-0382-x
At5g45150 Ribonuclease that cleaves double-stranded RNA (dsRNA). No verified direct reference in this release

Rice

Reference gene IDPossible functionPapers / DOI
Os05g0271300 Cleaves double-stranded RNA (dsRNA). No verified direct reference in this release
Os06g0358800 Cleaves double-stranded RNA (dsRNA). No verified direct reference in this release
Os01g0551100 Cleaves double-stranded RNA (dsRNA). No verified direct reference in this release
Functional annotation source
View annotation sources

Functional annotation source: OH1004 · LXL04_037291 · 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:0000911 cytokinesis by cell plate formation Biological Process
GO:0006364 rRNA processing Biological Process
GO:0006396 RNA processing Biological Process
GO:0009616 RNAi-mediated antiviral immune response Biological Process
GO:0009880 embryonic pattern specification Biological Process
GO:0009908 flower development Biological Process
GO:0010228 vegetative to reproductive phase transition of meristem Biological Process
GO:0010267 ta-siRNA processing Biological Process
GO:0010599 lsiRNA processing Biological Process
GO:0030422 siRNA processing Biological Process
GO:0031053 primary miRNA processing Biological Process
GO:0035196 miRNA processing Biological Process
KEGG gene cross-reference
ath:AT1G01040
ath:AT3G20420
dosa:Os03g0121800
dosa:Os05g0271300
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.

Nucleus0.536
Rank 1 · TkA04G268630 · TK1151
Cytoplasm0.482
Rank 2 · TkA04G268630 · TK1151
Cell membrane0.067
Rank 3 · TkA04G268630 · TK1151
Endoplasmic reticulum0.045
Rank 4 · TkA04G268630 · TK1151
Mitochondrion0.035
Rank 5 · TkA04G268630 · 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_367-198 aa
PF00636Ribonuclease_387-196 aa
PF00035dsrm130-162 aa
PF24651DUF7644147-160 aa
PF00035dsrm225-285 aa
PF24385DSRM_DHX29225-249 aa
PF20620DUF6805233-303 aa
PF24995DSRM_2248-286 aa
Gene IDDomain IDDomain NameStart aaEnd aaE-valueScore
TkA04G268630PF14622Ribonucleas_3_3671981.1e-1868.3
TkA04G268630PF00636Ribonuclease_3871961.4e-2074.6
TkA04G268630PF00035dsrm1301627.5e-2484.8
TkA04G268630PF24651DUF76441471603.09.0
TkA04G268630PF00035dsrm2252857.5e-2484.8
TkA04G268630PF24385DSRM_DHX292252490.003118.3
TkA04G268630PF20620DUF68052333030.01116.7
TkA04G268630PF24995DSRM_22482860.01816.3
TkA04G268630PF22892DSRM_MRPL442543000.008616.6
TkA04G268630PF14709DND1_DSRM2672851.7e-1041.8
TkA04G268630PF14622Ribonucleas_3_32712921.1e-1868.3
TkA04G268630PF24651DUF76442913263.09.0
TkA04G268630PF24995DSRM_22923140.01816.3
TkA04G268630PF14709DND1_DSRM3063751.7e-1041.8
TkA04G268630PF00035dsrm3073757.5e-2484.8
TkA04G268630PF24385DSRM_DHX293113510.003118.3

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

ProteinOrganismDescriptionIdentityDatabaseConfidence
Q9LTQ0Arabidopsis thalianasp|Q9LTQ0|RTL2_ARATH Ribonuclease 3-like protein 248.100%Swiss-ProtMedium
Q9FKF0Arabidopsis thalianasp|Q9FKF0|RTL3_ARATH Ribonuclease 3-like protein 330.900%Swiss-ProtMedium
Q6ATG6Oryza sativa subsp. japonicasp|Q6ATG6|RTL2_ORYSJ Ribonuclease 3-like protein 247.200%Swiss-ProtMedium
Q69KJ0Oryza sativa subsp. japonicasp|Q69KJ0|RTL3_ORYSJ Ribonuclease 3-like protein 339.500%Swiss-ProtMedium
Q5JK90Oryza sativa subsp. japonicasp|Q5JK90|RTL1_ORYSJ Ribonuclease 3-like protein 142.100%Swiss-ProtLow

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