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

TkA04G010440
Reference: TK1151 Chr: Chr04 Coordinates: 2488429-2496123 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

Download cDNA FASTA

3610 bp · TkA04G010440|TK1151|cDNA

TAAAGACAGGATACAAATGGCTGTACGGTGTAACCGTGTAGGTATATAAAACCACCATTTCCGGAGCCCCAAATAATTTGCTTTATTTCCTGGCGGGAATTTCCCAATTTTCACAAACTGCACACACTGAAGATCACGACGCCATGGAAGACGAACCTGATGTTTCTGATCAGCTCATTCGCCGCTCGAAAAGGACTAGGGTTCAGGCGAGGACTTTCGATGGGCTAGTAAGTAATCTTAAAGACATTGTCGAGTCCGAG...

CDS

Download CDS FASTA

3339 bp · TkA04G010440|TK1151|CDS

ATGGAAGACGAACCTGATGTTTCTGATCAGCTCATTCGCCGCTCGAAAAGGACTAGGGTTCAGGCGAGGACTTTCGATGGGCTAGTAAGTAATCTTAAAGACATTGTCGAGTCCGAGGATGAGTCTGCTGATGAATTTGTCGAACCTCGTCGGAAACCTAACCGACCTCGAACTGCGGAAGCAGCTCCTTCCACTACGACAGCCAAAGCTTTTGATCAGAATTTAATCGAGGTTATTAAAAGCAATGGAAAATTCATTCC...

Protein

Download Protein FASTA

1112 aa · TkA04G010440|TK1151|PROTEIN

MEDEPDVSDQLIRRSKRTRVQARTFDGLVSNLKDIVESEDESADEFVEPRRKPNRPRTAEAAPSTTTAKAFDQNLIEVIKSNGKFIPQVVKSWVERYETDPKPAMVELLTMLFETCGATYHIQGEFLDETNVDDVVVALVNLAAQGRVEDYQNSKKKEFRSFKENLVSFWDNLVSECQNGPLFDQVLFDKCMDYVIALSCTPPRVYRHVASMVGLQLVTSFIGAAKILAAHRQTTQRQLTAEKKKNSEGPHIESLNKRLS...

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 IDTkA04G010440
TK1151 IDTkA04G010440
OH-1004 IDLXL04_037019
Relationship / confidenceRbh Sequence Supported / Probable
Protein identity (%)93.400
Protein coverage (%)TK1151 100.000 / OH-1004 94.987
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 IDTkA04G010440
LocationChr04:2488429-2496123 (+)
DescriptionSimilar to SCC3: Sister-chromatid cohesion protein 3
Arabidopsis / Rice Reference Genes and Papers

Download references for this gene

Arabidopsis

Reference gene IDPossible functionPapers / DOI
At2g47980 Essential component of cohesin complex, a complex required for the cohesion of sister chromatids after DNA replication.
AtREC8 and AtSCC3 are essential to the monopolar orientation of the kinetochores during meiosis.2005 · DOI: 10.1242/jcs.02583
Cohesin gene defects may impair sister chromatid alignment and genome stability in Arabidopsis thaliana.2009 · DOI: 10.1007/s00412-009-0220-x

Rice

No hit for this species in the current source table.

Functional annotation source
View annotation sources

Functional annotation source: OH1004 · LXL04_037019 · 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:0000278 mitotic cell cycle Biological Process
GO:0007062 sister chromatid cohesion Biological Process
GO:0007065 male meiosis sister chromatid cohesion Biological Process
GO:0007066 female meiosis sister chromatid cohesion Biological Process
GO:0007129 homologous chromosome pairing at meiosis Biological Process
GO:0007130 synaptonemal complex assembly Biological Process
GO:0034087 establishment of mitotic sister chromatid cohesion Biological Process
GO:0034089 establishment of meiotic sister chromatid cohesion Biological Process
GO:0034502 protein localization to chromosome Biological Process
GO:0051301 cell division Biological Process
GO:0051455 spindle attachment to meiosis I kinetochore Biological Process
GO:0051754 meiotic sister chromatid cohesion, centromeric Biological Process
KEGG gene cross-reference
ath:AT2G47980
hsa:10274
hsa:10734
mmu:20842
mmu:50878
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.

Nucleus0.940
Rank 1 · TkA04G010440 · TK1151
Cytoplasm0.161
Rank 2 · TkA04G010440 · TK1151
Cell membrane0.016
Rank 3 · TkA04G010440 · TK1151
Mitochondrion0.016
Rank 4 · TkA04G010440 · TK1151
Golgi apparatus0.009
Rank 5 · TkA04G010440 · 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.

PF24571HEAT_SCC3-SA21-41 aa
PF00618RasGEF_N70-108 aa
PF08514STAG150-257 aa
PF00618RasGEF_N284-315 aa
PF21581SCD286-359 aa
PF13646HEAT_2286-346 aa
PF02985HEAT289-302 aa
PF12717Cnd1292-368 aa
Gene IDDomain IDDomain NameStart aaEnd aaE-valueScore
TkA04G010440PF24571HEAT_SCC3-SA21415.5e-70237.0
TkA04G010440PF00618RasGEF_N701080.1612.9
TkA04G010440PF08514STAG1502572.8e-2898.8
TkA04G010440PF00618RasGEF_N2843150.1612.9
TkA04G010440PF21581SCD2863592.6e-30105.2
TkA04G010440PF13646HEAT_22863460.03815.0
TkA04G010440PF02985HEAT2893020.002418.7
TkA04G010440PF12717Cnd12923680.003418.1
TkA04G010440PF02985HEAT3243440.002418.7
TkA04G010440PF12717Cnd13574120.003418.1
TkA04G010440PF13646HEAT_23984140.03815.0
TkA04G010440PF00618RasGEF_N4274550.1612.9
TkA04G010440PF31007STAG_C4384562e-2176.6
TkA04G010440PF24571HEAT_SCC3-SA4647175.5e-70237.0
TkA04G010440PF10896DUF27145175840.1313.0
TkA04G010440PF00618RasGEF_N5305640.1612.9

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
O82265Arabidopsis thalianasp|O82265|SCC3_ARATH Sister-chromatid cohesion protein 359.700%Swiss-ProtHigh

JBrowse

View in Genome Browser