RubberDandelionOmics Rubber Dandelion Multi-omics Website
More
Transcriptome Expression Annotation Rubber Pathway TF Prediction Targets Protein Network Resequencing Tools Downloads
ZH EN

How to use this page

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

TkA03G442020
Reference: TK1151 Chr: Chr03 Coordinates: 110152989-110157743 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

Download cDNA FASTA

1265 bp · TkA03G442020|TK1151|cDNA

TGTGCATGTCTACCAGGTAATTTAATATCATGTCAATATGTAGCTACTGATTTTAGTTACTTTTCATTCATCATTATTTGTATATTATTGTTACTTTATCAGCTTAGTGAAGAGGGACCTTGTGAAGATTTAGATGGAGATAGCCAACTTTCCAGCTTTAGTGAATGGATTCTTCCTGCCAAGGACTTTGATGGCATGTGGGAAAGCCTAGTTTATGAATCTGGTTTGAAGCAACGGTTACTAAGATATGCAGCAAGTGC...

CDS

Download CDS FASTA

1824 bp · TkA03G442020|TK1151|CDS

ATGTCTAGATACTTAAACCGCGGTTATGGATCCGACGACCATCTTAACTTCCGTAGGGATCCTATAGTCACCTATGATGTTCCTCAACCCAACAACGTCCACTTGGTATATGATGACAACCGCATCATGTTTGAGGAGGAGCGCCCTTTTGTTGGTTACCCTAACCGTGTAGTCTTTGAGGAACATCGTGTTAGTCCTATGCATAAACAATACCGCCATGGTTCAGTAGAGCCACGCAAGCATGTTCACTTTGTTGAGCA...

Protein

Download Protein FASTA

607 aa · TkA03G442020|TK1151|PROTEIN

MSRYLNRGYGSDDHLNFRRDPIVTYDVPQPNNVHLVYDDNRIMFEEERPFVGYPNRVVFEEHRVSPMHKQYRHGSVEPRKHVHFVEHDERVTESVDSFGNRKVHKESVDTIDNFGKEKVYKETIDTEADGFINRKHKNFELNKFGTFNSTPMEISVQNVTNGDAPHDQTGVVPESAVSSSPAPAVAEDKFLISVEVCLKPSSTARIEDVKLAVERMLENRNLSYADGPVDIPQDDTFLTDNVQRICICDTEEWVSNNDIL...

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 IDTkA03G442020
TK1151 IDTkA03G442020
OH-1004 IDLXL04_009494
Relationship / confidenceRbh Sequence Supported / Probable
Protein identity (%)94.800
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 IDTkA03G442020
LocationChr03:110152989-110157743 (-)
DescriptionSimilar to PCH2: Pachytene checkpoint protein 2 homolog
Arabidopsis / Rice Reference Genes and Papers

Download references for this gene

Arabidopsis

Reference gene IDPossible functionPapers / DOI
At4g24710 Plays a key role in chromosome recombination during meiosis.
Arabidopsis PCH2 Mediates Meiotic Chromosome Remodeling and Maturation of Crossovers.2015 · DOI: 10.1371/journal.pgen.1005372

Rice

Reference gene IDPossible functionPapers / DOI
UniProt: A2XUN8 Plays a key role in chromosome recombination during meiosis. No verified direct reference in this release
Os04g0479000 Plays a key role in chromosome recombination during meiosis. No verified direct reference in this release
Functional annotation source
View annotation sources

Functional annotation source: OH1004 · LXL04_009494 · 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:0006302 double-strand break repair Biological Process
GO:0007094 mitotic spindle assembly checkpoint signaling Biological Process
GO:0007129 homologous chromosome pairing at meiosis Biological Process
GO:0007130 synaptonemal complex assembly Biological Process
GO:0007131 reciprocal meiotic recombination Biological Process
GO:0007141 male meiosis I Biological Process
GO:0007144 female meiosis I Biological Process
GO:0007283 spermatogenesis Biological Process
GO:0007286 spermatid development Biological Process
GO:0042138 meiotic DNA double-strand break formation Biological Process
GO:0051026 chiasma assembly Biological Process
GO:0051598 meiotic recombination checkpoint signaling Biological Process
KEGG gene cross-reference
ath:AT4G24710
dosa:Os04g0479000
mmu:69716
rno:292206
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.

Cytoplasm0.541
Rank 1 · TkA03G442020 · TK1151
Nucleus0.352
Rank 2 · TkA03G442020 · TK1151
Endoplasmic reticulum0.123
Rank 3 · TkA03G442020 · TK1151
Cell membrane0.096
Rank 4 · TkA03G442020 · TK1151
Golgi apparatus0.092
Rank 5 · TkA03G442020 · 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.

PF00005ABC_tran47-108 aa
PF23563TRIP13_N93-112 aa
PF23563TRIP13_N188-277 aa
PF12775AAA_7337-367 aa
PF20720nSTAND3342-392 aa
PF13173AAA_14342-432 aa
PF00005ABC_tran342-407 aa
PF24883NPHP3_N342-375 aa
Gene IDDomain IDDomain NameStart aaEnd aaE-valueScore
TkA03G442020PF00005ABC_tran471080.0008720.6
TkA03G442020PF23563TRIP13_N931123.6e-2898.3
TkA03G442020PF23563TRIP13_N1882773.6e-2898.3
TkA03G442020PF12775AAA_73373670.01915.2
TkA03G442020PF20720nSTAND33423926.6e-0523.4
TkA03G442020PF13173AAA_143424320.0003521.3
TkA03G442020PF00005ABC_tran3424070.0008720.6
TkA03G442020PF24883NPHP3_N3423750.001419.5
TkA03G442020PF02367TsaE3423690.004417.7
TkA03G442020PF13604AAA_303424280.008416.6
TkA03G442020PF01637ATPase_23424310.01615.7
TkA03G442020PF03215Rad173423710.03614.7
TkA03G442020PF20703nSTAND13424660.04914.0
TkA03G442020PF01695IstB_IS213423690.05613.7
TkA03G442020PF06745ATPase3423600.07713.1
TkA03G442020PF13245AAA_193423670.1213.3

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
Q8H1F9Arabidopsis thalianasp|Q8H1F9|PCH2_ARATH Pachytene checkpoint protein 2 homolog73.700%Swiss-ProtHigh
A2XUN8Oryza sativa subsp. indicasp|A2XUN8|PCH2_ORYSI Pachytene checkpoint protein 2 homolog72.100%Swiss-ProtHigh
Q7XK25Oryza sativa subsp. japonicasp|Q7XK25|PCH2_ORYSJ Pachytene checkpoint protein 2 homolog72.100%Swiss-ProtHigh

JBrowse

View in Genome Browser