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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

TkA03G289800
Reference: TK1151 Chr: Chr03 Coordinates: 71456400-71459592 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

Download cDNA FASTA

1811 bp · TkA03G289800|TK1151|cDNA

TGGATGGTAGGTCCCTTTGCTCTCAAAGCTTTTTAGAGAGAGAAATAGGGTTTTAGAGAGAGAAAACCCCAAGGGTTTTTAACTTCCACAAAGAACCAATTAGTCAATGGAAGAAGCTTCGTCGCCATTGTCGCAACCCAAAAAGAGAGGAAGGCCGAAGGGCTCCAAGAAGATCGCCACTGAAGACAGAGAATTTTCAAGTCCGAAGATGAGAGACAGAGGTACAGCTGCCGGGAACAAGAAGGCTGCCGTTGTTGACG...

CDS

Download CDS FASTA

765 bp · TkA03G289800|TK1151|CDS

ATGGAAGAAGCTTCGTCGCCATTGTCGCAACCCAAAAAGAGAGGAAGGCCGAAGGGCTCCAAGAAGATCGCCACTGAAGACAGAGAATTTTCAAGTCCGAAGATGAGAGACAGAGGTACAGCTGCCGGGAACAAGAAGGCTGCCGTTGTTGACGATAAGTACAATAACTGGAAGTTTGTTGTTCCCATTCTTTACGACTGGCTTGCTAATCACAACCTCGTTTGGCCTTCTCTCTCCTGCCGGTGGGGTCCGCTGCTGGA...

Protein

Download Protein FASTA

254 aa · TkA03G289800|TK1151|PROTEIN

MEEASSPLSQPKKRGRPKGSKKIATEDREFSSPKMRDRGTAAGNKKAAVVDDKYNNWKFVVPILYDWLANHNLVWPSLSCRWGPLLEQSTNKSRQRLYLSEQTDGSVPNTLVIATCDVVKPKVAAAETFLRFNEEARSPFVKKYKTIIHPGEVNRIRELPQNKNIVATHTDCPEVLIWDIEAQPNRYAVLGAAESHADLILTGHADNAEFALAMCPSEPYVLSGGKDKLVVLWSIHDHISSLETQTQQILRGQL

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.

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ID Mapping

Input IDTkA03G289800
TK1151 IDTkA03G289800
OH-1004 IDLXL04_027868
Relationship / confidenceMulti Source To Oh1004 / Complex relationship
Protein identity (%)84.900
Protein coverage (%)TK1151 95.276 / OH-1004 50.884
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 IDTkA03G289800
LocationChr03:71456400-71459592 (+)
DescriptionSimilar to MSI4: WD-40 repeat-containing protein MSI4
Arabidopsis / Rice Reference Genes and Papers

Download references for this gene

Arabidopsis

Reference gene IDPossible functionPapers / DOI
At2g19520 Core histone-binding subunit that may target chromatin assembly factors, chromatin remodeling factors and histone deacetylases to their histone substrates in a manner that is regulated by nucleosomal DNA.
Regulation of flowering time by FVE, a retinoblastoma-associated protein.2004 · DOI: 10.1038/ng1295
A genetic link between cold responses and flowering time through FVE in Arabidopsis thaliana.2004 · DOI: 10.1038/ng1298
At4g29730 Core histone-binding subunit that may target chromatin assembly factors, chromatin remodeling factors and histone deacetylases to their histone substrates in a manner that is regulated by nucleosomal DNA (By similarity).
Arabidopsis PWWP domain proteins mediate H3K27 trimethylation on FLC and regulate flowering time.2018 · DOI: 10.1111/jipb.12630

Rice

No hit for this species in the current source table.

Functional annotation source
View annotation sources

Functional annotation source: OH1004 · LXL04_027868 · 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:0000122 negative regulation of transcription by RNA polymerase II Biological Process
GO:0006260 DNA replication Biological Process
GO:0006281 DNA repair Biological Process
GO:0006334 nucleosome assembly Biological Process
GO:0006335 DNA replication-dependent chromatin assembly Biological Process
GO:0006338 chromatin remodeling Biological Process
GO:0006351 DNA-templated transcription Biological Process
GO:0006355 regulation of DNA-templated transcription Biological Process
GO:0009627 systemic acquired resistance Biological Process
GO:0009908 flower development Biological Process
GO:0010224 response to UV-B Biological Process
GO:0010629 negative regulation of gene expression Biological Process
KEGG gene cross-reference
ath:AT2G16780
ath:AT2G19520
ath:AT4G29730
ddi:DDB_G0282529
mmu:19646
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.

Nucleus0.880
Rank 1 · TkA03G289800 · TK1151
Cytoplasm0.219
Rank 2 · TkA03G289800 · TK1151
Cell membrane0.025
Rank 3 · TkA03G289800 · TK1151
Mitochondrion0.022
Rank 4 · TkA03G289800 · TK1151
Endoplasmic reticulum0.014
Rank 5 · TkA03G289800 · 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.

PF12265CAF1C_H4-bd52-119 aa
PF25174Beta-prop_THOC3147-183 aa
PF24814WD40_Prp19148-238 aa
PF00400WD40149-168 aa
PF24105Beta-prop_CAF1B_HIR1150-237 aa
PF25173Beta-prop_WDR3_1st151-237 aa
PF24807WD40_CDC20-Fz151-242 aa
PF25175Beta-prop_WDR5153-237 aa
Gene IDDomain IDDomain NameStart aaEnd aaE-valueScore
TkA03G289800PF12265CAF1C_H4-bd521191.2e-1971.0
TkA03G289800PF25174Beta-prop_THOC31471831.7e-0524.7
TkA03G289800PF24814WD40_Prp191482380.04113.6
TkA03G289800PF00400WD401491680.0008720.5
TkA03G289800PF24105Beta-prop_CAF1B_HIR11502370.01515.0
TkA03G289800PF25173Beta-prop_WDR3_1st1512370.002918.0
TkA03G289800PF24807WD40_CDC20-Fz1512420.0214.9
TkA03G289800PF25175Beta-prop_WDR51532370.02614.5
TkA03G289800PF28639DNAI3_WD1561860.00715.9
TkA03G289800PF12265CAF1C_H4-bd1611721.2e-1971.0
TkA03G289800PF23414Beta-prop_EML_21631820.001318.9
TkA03G289800PF28639DNAI3_WD1962440.00715.9
TkA03G289800PF00400WD402002340.0008720.5
TkA03G289800PF25174Beta-prop_THOC32012401.7e-0524.7
TkA03G289800PF23381Beta-prop_IFT122_1st2022390.08712.9
TkA03G289800PF23414Beta-prop_EML_22112480.001318.9

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
O22607Arabidopsis thalianasp|O22607|MSI4_ARATH WD-40 repeat-containing protein MSI472.400%Swiss-ProtHigh
Q9SU78Arabidopsis thalianasp|Q9SU78|MSI5_ARATH WD-40 repeat-containing protein MSI568.900%Swiss-ProtHigh

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