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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

TkA01G007930
Reference: TK1151 Chr: Chr01 Coordinates: 2079368-2081839 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

Download cDNA FASTA

1443 bp · TkA01G007930|TK1151|cDNA

TTCGCTTTGCGTCCTCATTCCACCTTAATATTTATAGATAACATTCTTATATCACACTTCCATTCCATCTCCTACACGTATCTTCCTCTTTCTCTTCGACTCTTTCTTATTCCGATACTTCCCCTGAAAGTCTGCAACATATCCATGGATGCGTATTCAGCTAAACGAGCTCTTCCCTGGGTTGGCGCCCTTAGAAACGGATCAAGTTCTTCTACACGCGATACCAAAATCCCTAGAGACGGCGCCGTTCAATTCTGCAA...

CDS

Download CDS FASTA

1188 bp · TkA01G007930|TK1151|CDS

TTCGCTTTGCGTCCTCATTCCACCTTAATATTTATAGATAACATTCTTATATCACACTTCCATTCCATCTCCTACACGTATCTTCCTCTTTCTCTTCGACTCTTTCTTATTCCGATACTTCCCCTGAAAGTCTGCAACATATCCATGGATGCGTATTCAGCTAAACGAGCTCTTCCCTGGGTTGGCGCCCTTAGAAACGGATCAAGTTCTTCTACACGCGATACCAAAATCCCTAGAGACGGCGCCGTTCAATTCTGCAA...

Protein

Download Protein FASTA

395 aa · TkA01G007930|TK1151|PROTEIN

FALRPHSTLIFIDNILISHFHSISYTYLPLSLRLFLIPILPLKVCNISMDAYSAKRALPWVGALRNGSSSSTRDTKIPRDGAVQFCNRIGCSGRLNHPKHTPNQSMSNPKTPSSQSSNTKVKRPLKESKTKVPLSSKPEIVEIEASSSNRKSKSRGNESIGRSKSNVLANYDSQIGLTRRNTVKKRSTEGETSLHRGRKISGAGPLSVRTRRSVNLNGNDGGTPHEPRTEPSSDGSNHHGLSSMMPGVYNVDAIANVLMA...

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 IDTkA01G007930
TK1151 IDTkA01G007930
OH-1004 IDLXL04_028932
Relationship / confidenceMulti Source To Oh1004 / Complex relationship
Protein identity (%)38.300
Protein coverage (%)TK1151 87.848 / OH-1004 99.034
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 IDTkA01G007930
LocationChr01:2079368-2081839 (+)
DescriptionSimilar to HIP1: Probable E3 ubiquitin-protein ligase HIP1
Arabidopsis / Rice Reference Genes and Papers

Download references for this gene

Arabidopsis

Reference gene IDPossible functionPapers / DOI
At4g34040 E3 ubiquitin-protein ligase that functions as a regulator of MED25 stability by targeting MED25 for degradation in a RING-H2- dependent way.
Proteasome-mediated turnover of Arabidopsis MED25 is coupled to the activation of FLOWERING LOCUS T transcription.2012 · DOI: 10.1104/pp.112.205500
At5g42940 Probable E3 ubiquitin-protein ligase that may possess E3 ubiquitin ligase activity in vitro. No verified direct reference in this release
At2g15530 E3 ubiquitin-protein ligase that functions as a regulator of MED25 stability by targeting MED25 for degradation in a RING-H2- dependent way.
Proteasome-mediated turnover of Arabidopsis MED25 is coupled to the activation of FLOWERING LOCUS T transcription.2012 · DOI: 10.1104/pp.112.205500

Rice

Reference gene IDPossible functionPapers / DOI
Os04g0648800 Probable E3 ubiquitin-protein ligase that functions downstream of HAL3 and is required for HAL3-regulated plant growth. No verified direct reference in this release
Os01g0667700 Probable E3 ubiquitin-protein ligase. No verified direct reference in this release
Functional annotation source
View annotation sources

Functional annotation source: OH1004 · LXL04_028932 · 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:0009845 seed germination Biological Process
GO:0009908 flower development Biological Process
GO:0010218 response to far red light Biological Process
GO:0010228 vegetative to reproductive phase transition of meristem Biological Process
GO:0016567 protein ubiquitination Biological Process
GO:0043161 proteasome-mediated ubiquitin-dependent protein catabolic process Biological Process
GO:0005634 nucleus Cellular Component
GO:0008270 zinc ion binding Molecular Function
GO:0061630 ubiquitin protein ligase activity Molecular Function
GO:0061659 ubiquitin-like protein ligase activity Molecular Function
KEGG gene cross-reference
ath:AT2G15530
ath:AT4G34040
ath:AT5G42940
dosa:Os01g0667700
dosa:Os04g0648800
osa:4326322
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.

Nucleus0.671
Rank 1 · TkA01G007930 · TK1151
Cytoplasm0.337
Rank 2 · TkA01G007930 · TK1151
Cell membrane0.092
Rank 3 · TkA01G007930 · TK1151
Endoplasmic reticulum0.047
Rank 4 · TkA01G007930 · TK1151
Lysosome / Vacuole0.027
Rank 5 · TkA01G007930 · 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.

PF13923zf-C3HC4_245-53 aa
PF13445zf-RING_UBOX45-53 aa
PF08746zf-RING-like85-94 aa
PF11789zf-Nse118-137 aa
PF13920zf-C3HC4_3346-393 aa
PF29452FAR1_N347-385 aa
PF11793FANCL_C347-382 aa
PF14446Prok-RING_1347-376 aa
Gene IDDomain IDDomain NameStart aaEnd aaE-valueScore
TkA01G007930PF13923zf-C3HC4_245531.7e-0731.6
TkA01G007930PF13445zf-RING_UBOX45530.0005520.6
TkA01G007930PF08746zf-RING-like85942.49.1
TkA01G007930PF11789zf-Nse1181372.98.5
TkA01G007930PF13920zf-C3HC4_33463930.0116.3
TkA01G007930PF29452FAR1_N3473850.03414.9
TkA01G007930PF11793FANCL_C3473820.3511.9
TkA01G007930PF14446Prok-RING_13473761.010.3
TkA01G007930PF11789zf-Nse3473892.98.5
TkA01G007930PF13639zf-RING_23483908.1e-1349.1
TkA01G007930PF13923zf-C3HC4_23483891.7e-0731.6
TkA01G007930PF14634zf-RING_53483910.0008220.0
TkA01G007930PF25998U-box_ZFPL13483810.005117.9
TkA01G007930PF14835zf-RING_63483930.1312.9
TkA01G007930PF23555zf-RING_Vps413483780.1612.3
TkA01G007930PF17123zf-RING_113493763.6e-0730.5

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
O49500Arabidopsis thalianasp|O49500|MBR2_ARATH E3 ubiquitin-protein ligase MBR243.000%Swiss-ProtLow
Q9FMM4Arabidopsis thalianasp|Q9FMM4|RHG1A_ARATH Probable E3 ubiquitin-protein ligase RHG1A38.500%Swiss-ProtMedium
Q9ZQF9Arabidopsis thalianasp|Q9ZQF9|MBR1_ARATH E3 ubiquitin-protein ligase MBR138.400%Swiss-ProtLow
Q7XTV7Oryza sativa subsp. japonicasp|Q7XTV7|HIP1_ORYSJ Probable E3 ubiquitin-protein ligase HIP147.400%Swiss-ProtLow
Q5QLR5Oryza sativa subsp. japonicasp|Q5QLR5|ZFP1_ORYSJ Probable E3 ubiquitin-protein ligase ZFP146.500%Swiss-ProtLow

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