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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

TkA03G412920
Reference: TK1151 Chr: Chr03 Coordinates: 102706273-102708974 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

Download cDNA FASTA

1508 bp · TkA03G412920|TK1151|cDNA

TTTTGCCTTTTCCCGTTTGCATTCCTGCAAAACAAAGCAGTCGCTTTTCCCTTCGTTCTGGAAAATCTCGATCCGTTTCTGTATCGTTAGGGTTTCGGCTTACTAAAACTCCACATATTCCCTACTATCCCCGATTCTTTGTGGGATCCGAGGTCCGCTCATCTTCAACATGAAGCTCACCGTAAAGACTCTTAAAGGGAGCCACTTTGAAATTAGGGTTCAACCTTCCGATACTATTATGGCAGTCAAGAAAAACATCG...

CDS

Download CDS FASTA

1068 bp · TkA03G412920|TK1151|CDS

ATGAAGCTCACCGTAAAGACTCTTAAAGGGAGCCACTTTGAAATTAGGGTTCAACCTTCCGATACTATTATGGCAGTCAAGAAAAACATCGAAGATGTACAAGGAAAAGATAATTACCCATGTGGACAGCAATTACTGATTCACAATGGTAAGGTTCTGAAAGACGAAACTACATTATTAGATAACAAAGTCTCGGAGGAAGGTTTTCTTGTTGTCATGCTAAGCAAGCAGACTAAAAGTTCTACATCAAGTGGAACTAC...

Protein

Download Protein FASTA

355 aa · TkA03G412920|TK1151|PROTEIN

MKLTVKTLKGSHFEIRVQPSDTIMAVKKNIEDVQGKDNYPCGQQLLIHNGKVLKDETTLLDNKVSEEGFLVVMLSKQTKSSTSSGTTSTQPLSTTTPASNPTSTSSSIPATATVTAPVPAVSETYGEAGSNVVVTNNNVDQTVQHIMDIGGGSWDKETVTRALQAAFNNPERAIDYLYSGIPDTVEVAPPVTQLPTTQVPPLSGGPNSSPLNLFPQEMPSGGTGGNLGSLDFLRNNEQFQALRTMVQSNPQILQPMLQEL...

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 IDTkA03G412920
TK1151 IDTkA03G412920
OH-1004 IDLXL04_009252
Relationship / confidenceRbh High Identity Coverage Synteny / Strict
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 IDTkA03G412920
LocationChr03:102706273-102708974 (-)
DescriptionSimilar to RAD23B: Ubiquitin receptor RAD23b
Arabidopsis / Rice Reference Genes and Papers

Download references for this gene

Arabidopsis

Reference gene IDPossible functionPapers / DOI
At1g79650 May be involved in nucleotide excision repair (By similarity).
The RAD23 family provides an essential connection between the 26S proteasome and ubiquitylated proteins in Arabidopsis.2010 · DOI: 10.1105/tpc.109.072660
RAD4 and RAD23/HMR Contribute to Arabidopsis UV Tolerance.2017 · DOI: 10.3390/genes9010008
At1g16190 May be involved in nucleotide excision repair (By similarity). No verified direct reference in this release
At5g38470 May be involved in nucleotide excision repair (By similarity). No verified direct reference in this release
At3g02540 May be involved in nucleotide excision repair (By similarity). No verified direct reference in this release

Rice

Reference gene IDPossible functionPapers / DOI
Os09g0407200 May be involved in nucleotide excision repair (By similarity). No verified direct reference in this release
Functional annotation source
View annotation sources

Functional annotation source: OH1004 · LXL04_009252 · 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:0006289 nucleotide-excision repair Biological Process
GO:0009409 response to cold Biological Process
GO:0009411 response to UV Biological Process
GO:0009650 UV protection Biological Process
GO:0043161 proteasome-mediated ubiquitin-dependent protein catabolic process Biological Process
GO:0005634 nucleus Cellular Component
GO:0005654 nucleoplasm Cellular Component
GO:0005737 cytoplasm Cellular Component
GO:0005829 cytosol Cellular Component
GO:0009536 plastid Cellular Component
GO:0003684 damaged DNA binding Molecular Function
GO:0031593 polyubiquitin modification-dependent protein binding Molecular Function
KEGG gene cross-reference
ath:AT1G16190
ath:AT1G79650
ath:AT3G02540
ath:AT5G38470
dosa:Os09g0407200
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.

Cytoplasm0.683
Rank 1 · TkA03G412920 · TK1151
Nucleus0.636
Rank 2 · TkA03G412920 · TK1151
Endoplasmic reticulum0.051
Rank 3 · TkA03G412920 · TK1151
Cell membrane0.040
Rank 4 · TkA03G412920 · TK1151
Mitochondrion0.035
Rank 5 · TkA03G412920 · 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.

PF11976Rad60-SLD1-73 aa
PF00240ubiquitin3-76 aa
PF14560Ubiquitin_24-36 aa
PF21696TECR_N16-65 aa
PF21827New_glue71-115 aa
PF28024SPW_092482-98 aa
PF00627UBA135-145 aa
PF02845CUE135-147 aa
Gene IDDomain IDDomain NameStart aaEnd aaE-valueScore
TkA03G412920PF11976Rad60-SLD1734.3e-0523.9
TkA03G412920PF00240ubiquitin3767.7e-1555.1
TkA03G412920PF14560Ubiquitin_24360.08314.1
TkA03G412920PF21696TECR_N16650.0215.6
TkA03G412920PF21827New_glue711151.29.6
TkA03G412920PF28024SPW_092482980.07713.7
TkA03G412920PF00627UBA1351453.3e-2175.4
TkA03G412920PF02845CUE1351470.0004920.4
TkA03G412920PF00627UBA1411773.3e-2175.4
TkA03G412920PF02845CUE1531770.0004920.4
TkA03G412920PF22562UBA_71551791.6e-0525.4
TkA03G412920PF24559UBA_RAD5A1591780.0813.2
TkA03G412920PF27606UBA_Ucp121611770.01415.9
TkA03G412920PF09280XPC-binding2302851.2e-2383.2
TkA03G412920PF29027DUF84932362540.3611.4
TkA03G412920PF29027DUF84932582700.3611.4

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
Q84L33Arabidopsis thalianasp|Q84L33|RD23B_ARATH Ubiquitin receptor RAD23b68.100%Swiss-ProtHigh
Q84L32Arabidopsis thalianasp|Q84L32|RD23A_ARATH Probable ubiquitin receptor RAD23a66.000%Swiss-ProtHigh
Q84L30Arabidopsis thalianasp|Q84L30|RD23D_ARATH Ubiquitin receptor RAD23d56.000%Swiss-ProtHigh
Q84L31Arabidopsis thalianasp|Q84L31|RD23C_ARATH Ubiquitin receptor RAD23c49.200%Swiss-ProtMedium
Q40742Oryza sativa subsp. japonicasp|Q40742|RAD23_ORYSJ Probable ubiquitin receptor RAD2349.400%Swiss-ProtMedium

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