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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

TkA04G504220
Reference: TK1151 Chr: Chr04 Coordinates: 127350811-127355040 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

Download cDNA FASTA

3398 bp · TkA04G504220|TK1151|cDNA

AATTCACCCGTACGAAGCATTCTTTTTTTTTGGAACCGGCCGTACGAAGCATTCCCTCCGCCAAATCACACTACTTCTCCACTCTAAAGTAAAGAACAAGAACCCTAATTGTTACTCTACATTTTTTCATTCTACACGCGATTCCGGTACCATATCGAAAATCAGAAATGAGTGTAAATACGATGAAGTATATAAGGGAATCGATCTAGCGAAGAAGACGTAGCAACCACATTGCAAAAGAAGGCGGAGCTTGATTTTCT...

CDS

Download CDS FASTA

2811 bp · TkA04G504220|TK1151|CDS

ATGTCAGTGAACTACAACGATGAAACAAGATCTGTCATCAGTGATGTTGGAGATATTGGCAATGTCGATTTTGCAAATGATGGATGTAAGTATAACTATGATCAAGGAAACGATGGTCCAATCATCATATCAGCTCCCTTTCCTCTAAAAGAAGGAAAGCCCAAATTTGTAGCTGCTGTAAACGAAAGGATCTTCAATCCAATCACCATCAAGAACACAACAACGGAAGCAGCAACTCTATGGTCAATCGAGATATACGA...

Protein

Download Protein FASTA

936 aa · TkA04G504220|TK1151|PROTEIN

MSVNYNDETRSVISDVGDIGNVDFANDGCKYNYDQGNDGPIIISAPFPLKEGKPKFVAAVNERIFNPITIKNTTTEAATLWSIEIYDSKPKDCFTLSVMEPPAPDSDNQSFVESFSLEDRTLLPGKTLTIWLSCKPVVKGLHTTAVHFNVDDDRIERVGFIMAEDKISRFLSSNKPYNRPRRNKPLLPKLFTPGGDNNGVKILRTSRPAKATGRAYRYKLPEYVIPKSIREMIESKATPDALMEGLTRKNYVTFFKTLII...

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 IDTkA04G504220
TK1151 IDTkA04G504220
OH-1004 IDLXL04_011072
Relationship / confidenceMulti Source To Oh1004 / Complex relationship
Protein identity (%)29.300
Protein coverage (%)TK1151 56.197 / OH-1004 84.154
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 IDTkA04G504220
LocationChr04:127350811-127355040 (+)
DescriptionSimilar to Ighmbp2: DNA-binding protein SMUBP-2
Arabidopsis / Rice Reference Genes and Papers

Download references for this gene

Arabidopsis

Reference gene IDPossible functionPapers / DOI
At1g05460 Probable RNA helicase required for post-transcriptional gene silencing (PTGS), a process that provides protection in plants against virus infection and can suppress expression of transgenes.
SDE3 encodes an RNA helicase required for post-transcriptional gene silencing in Arabidopsis.2001 · DOI: 10.1093/emboj/20.8.2069
Ago hook and RNA helicase motifs underpin dual roles for SDE3 in antiviral defense and silencing of nonconserved intergenic regions.2012 · DOI: 10.1016/j.molcel.2012.07.028

Rice

No hit for this species in the current source table.

Functional annotation source
View annotation sources

Functional annotation source: OH1004 · LXL04_011072 · 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:0006351 DNA-templated transcription Biological Process
GO:0006412 translation Biological Process
GO:0006974 DNA damage response Biological Process
GO:1903459 mitotic DNA replication lagging strand elongation Biological Process
GO:0005634 nucleus Cellular Component
GO:0005654 nucleoplasm Cellular Component
GO:0005737 cytoplasm Cellular Component
GO:0005829 cytosol Cellular Component
GO:0016020 membrane Cellular Component
GO:0016604 nuclear body Cellular Component
GO:0033203 DNA helicase A complex Cellular Component
KEGG gene cross-reference
hsa:3508
maua:101836074
rno:29532
spo:2539412
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.

Nucleus0.506
Rank 1 · TkA04G504220 · TK1151
Cytoplasm0.504
Rank 2 · TkA04G504220 · TK1151
Cell membrane0.058
Rank 3 · TkA04G504220 · TK1151
Mitochondrion0.058
Rank 4 · TkA04G504220 · TK1151
Endoplasmic reticulum0.052
Rank 5 · TkA04G504220 · 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.

PF21634MOV-10_beta-barrel273-357 aa
PF04851ResIII405-570 aa
PF13086AAA_11406-495 aa
PF13604AAA_30406-592 aa
PF05970PIF1406-481 aa
PF00580UvrD-helicase407-477 aa
PF02562PhoH407-589 aa
PF00270DEAD409-478 aa
Gene IDDomain IDDomain NameStart aaEnd aaE-valueScore
TkA04G504220PF21634MOV-10_beta-barrel2733571.4e-2692.5
TkA04G504220PF04851ResIII4055702.4e-0525.0
TkA04G504220PF13086AAA_114064951.6e-33117.3
TkA04G504220PF13604AAA_304065926.9e-1143.0
TkA04G504220PF05970PIF14064810.2811.5
TkA04G504220PF00580UvrD-helicase4074771.8e-0525.3
TkA04G504220PF02562PhoH4075890.02914.6
TkA04G504220PF00270DEAD4094780.001319.2
TkA04G504220PF13191AAA_164214750.005118.1
TkA04G504220PF25199nSTAND_NTPase54214670.05214.1
TkA04G504220PF12775AAA_74224750.1712.1
TkA04G504220PF13245AAA_194255927.9e-0936.5
TkA04G504220PF13401AAA_224254948e-0626.9
TkA04G504220PF13173AAA_144254620.2811.9
TkA04G504220PF09848SLFN-g3_helicase4264900.006916.4
TkA04G504220PF24883NPHP3_N4264760.01316.4

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
Q8GYD9Arabidopsis thalianasp|Q8GYD9|SDE3_ARATH Probable RNA helicase SDE356.500%Swiss-ProtHigh

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