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

TkA01G006390
Reference: TK1151 Chr: Chr01 Coordinates: 1651432-1655793 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

Download cDNA FASTA

1887 bp · TkA01G006390|TK1151|cDNA

TTGCCTTTTATCTCTTTGTCATCAGTTGCGTGCTAGAAGAAGGGACAGCAAGAATTTCTTCTTCCTGAAATTTATATTAATAGTGATTGATTGAGATCTTCGATTATTGATCCATTTTATTATGATTAATAATGGAAACAAGATAACCTCGATTGATAACTCATCTTTGAATCATAACGGGGAGAAGGTTTTGAGTACATCTGATCAAAAGGGTTACATGGAAATGGAGGGAAGAGTTTATTCAGATTTGTATAGAAACA...

CDS

Download CDS FASTA

1608 bp · TkA01G006390|TK1151|CDS

ATGATTAATAATGGAAACAAGATAACCTCGATTGATAACTCATCTTTGAATCATAACGGGGAGAAGGTTTTGAGTACATCTGATCAAAAGGGTTACATGGAAATGGAGGGAAGAGTTTATTCAGATTTGTATAGAAACACAAGTGAAGATATGTTCATAAGAACATTAATGGAAAGTCCAGTTGGAATGCCTGCACCAACCATGGAGATGCTTGGTTTTAAAAACCTTTCTAATAACTTTCGTGCAGATAGTGAGGAACT...

Protein

Download Protein FASTA

535 aa · TkA01G006390|TK1151|PROTEIN

MINNGNKITSIDNSSLNHNGEKVLSTSDQKGYMEMEGRVYSDLYRNTSEDMFIRTLMESPVGMPAPTMEMLGFKNLSNNFRADSEELFKNWLTTGENQGHNPTLVHNRSRQLSRMMLADQANLSSQQNGVSLERKTSNEKLIPQSLLAVGESSNDINDLPVRNVAENGLQASNLYLAKAWFHSSQPMTRSRSSELRRKYVAMQNSQTSIGMEAMHNASGNRVNQLKQQFVNQSQLNDSSMYHIDGFMPPSNSSSSNINEL...

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 IDTkA01G006390
TK1151 IDTkA01G006390
OH-1004 IDLXL04_005930
Relationship / confidenceRbh High Identity Coverage Synteny / Strict
Protein identity (%)99.100
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 IDTkA01G006390
LocationChr01:1651432-1655793 (+)
DescriptionSimilar to IPD3: Protein CYCLOPS
Arabidopsis / Rice Reference Genes and Papers

Download references for this gene

Arabidopsis

No hit for this species in the current source table.

Rice

Reference gene IDPossible functionPapers / DOI
Os06g0115600 Involved in arbuscular mycorrhizal (AM) symbiosis.
OsIPD3, an ortholog of the Medicago truncatula DMI3 interacting protein IPD3, is required for mycorrhizal symbiosis in rice.2008 · DOI: 10.1111/j.1469-8137.2008.02612.x
CYCLOPS, a mediator of symbiotic intracellular accommodation.2008 · DOI: 10.1073/pnas.0806858105
Functional annotation source
View annotation sources

Functional annotation source: OH1004 · LXL04_005930 · 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:0006355 regulation of DNA-templated transcription Biological Process
GO:0009877 nodulation Biological Process
GO:0036377 arbuscular mycorrhizal association Biological Process
GO:0045893 positive regulation of DNA-templated transcription Biological Process
GO:0005634 nucleus Cellular Component
GO:0003700 DNA-binding transcription factor activity Molecular Function
GO:0042803 protein homodimerization activity Molecular Function
GO:0043565 sequence-specific DNA binding Molecular Function
KEGG gene cross-reference
dosa:Os06g0115600
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.

Nucleus0.967
Rank 1 · TkA01G006390 · TK1151
Cytoplasm0.125
Rank 2 · TkA01G006390 · TK1151
Cell membrane0.021
Rank 3 · TkA01G006390 · TK1151
Mitochondrion0.010
Rank 4 · TkA01G006390 · TK1151
Endoplasmic reticulum0.009
Rank 5 · TkA01G006390 · 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.

PF29997SPC25_N106-128 aa
PF29997SPC25_N192-236 aa
PF05852DUF848202-239 aa
PF16515HIP1_clath_bdg212-212 aa
PF07989Cnn_1N412-425 aa
PF15313HEXIM432-517 aa
PF17060MPS2438-525 aa
PF11932DUF3450442-530 aa
Gene IDDomain IDDomain NameStart aaEnd aaE-valueScore
TkA01G006390PF29997SPC25_N1061282.98.9
TkA01G006390PF29997SPC25_N1922362.98.9
TkA01G006390PF05852DUF8482022390.8810.4
TkA01G006390PF16515HIP1_clath_bdg2122120.04115.0
TkA01G006390PF07989Cnn_1N4124251.210.1
TkA01G006390PF15313HEXIM4325170.01316.4
TkA01G006390PF17060MPS24385252.47.8
TkA01G006390PF11932DUF34504425300.0513.6
TkA01G006390PF05852DUF8484515270.8810.4
TkA01G006390PF16515HIP1_clath_bdg4594860.04115.0
TkA01G006390PF17675APG6_N4665240.2712.4
TkA01G006390PF29997SPC25_N4685262.98.9
TkA01G006390PF07989Cnn_1N4755271.210.1
TkA01G006390PF16515HIP1_clath_bdg4945310.04115.0

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.

Download current result

ProteinOrganismDescriptionIdentityDatabaseConfidence
A9XMT5Oryza sativa subsp. japonicasp|A9XMT5|CCLOP_ORYSJ Protein CYCLOPS46.200%Swiss-ProtMedium

JBrowse

View in Genome Browser