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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

TkA01G049050
Reference: TK1151 Chr: Chr01 Coordinates: 12679386-12682069 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

Download cDNA FASTA

1995 bp · TkA01G049050|TK1151|cDNA

AAAAGTGAAACTTCAGGGCCTCGAATGTAAAGTCAGAACATAACTGGGTATCCTCAAATCTCAATCTCTTGTTACCCTGCGCTTCCTTGCTGACAGAGCTTCTTCTTTCTCAATCTCCTCACAAAGACACAAACAATGGCACTTCACTTGCCAAAACCCTAAATTAATAAAAGCGTACCCGTCTTCCAAATTCGAATCTCCTGGGTTTTAATTTAATCAATTCCGTCAACAATAACTGCTTTCATCAGGTACTTTCCTTG...

CDS

Download CDS FASTA

1140 bp · TkA01G049050|TK1151|CDS

ATGGATTACGGTCGAGAAAGTGGTAATGTTGTTCAGATAATCACCGGAGGTTCAAGAAACGGCGGTGATTACTGGGGGGATCAGCCCGTATGGGCAACCGAAGACGAATACGGCGTTTGGGACAGAGAAGCATCCGTCGACAATACTTCCAATTCCAATTACGACGGACGACAATCACAAACAAGATCAGGTTCCGAAACACCAAACAAGAAAAGAAACGGGCAAGGAGGCGACGTACAATCTTCCAGTCGTTCAAAAGC...

Protein

Download Protein FASTA

379 aa · TkA01G049050|TK1151|PROTEIN

MDYGRESGNVVQIITGGSRNGGDYWGDQPVWATEDEYGVWDREASVDNTSNSNYDGRQSQTRSGSETPNKKRNGQGGDVQSSSRSKAIGKMFFKTKLCCKFRAGTCPYITNCNFAHSIEELRRPPPNWQEIVAAHEEERAVSSEPREEYQIPSLGSSSFTVDSQRSYKGRHCKKFYTEEGCPYGDNCTFLHDEQSKARESVVISLGPGSGGGYGGPGGSSTGVIVVGGGAAAGGGGGGGGGGGGQEAAGSNSMLKPSNWK...

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 IDTkA01G049050
TK1151 IDTkA01G049050
OH-1004 IDLXL04_018269
Relationship / confidenceNon Reciprocal Best Hit / Complex relationship
Protein identity (%)30.200
Protein coverage (%)TK1151 76.253 / OH-1004 83.746
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 IDTkA01G049050
LocationChr01:12679386-12682069 (+)
DescriptionSimilar to At3g19360: Zinc finger CCCH domain-containing protein 39
Arabidopsis / Rice Reference Genes and Papers

Download references for this gene

Arabidopsis

Reference gene IDPossible functionPapers / DOI
At1g32360 Zinc finger CCCH domain-containing protein 12. No verified direct reference in this release
At2g35430 Zinc finger CCCH domain-containing protein 28. No verified direct reference in this release
At3g19360 Zinc finger CCCH domain-containing protein 39. No verified direct reference in this release

Rice

Reference gene IDPossible functionPapers / DOI
Os08g0159800 Zinc finger CCCH domain-containing protein 56. No verified direct reference in this release
Os05g0576300 Zinc finger CCCH domain-containing protein 39. No verified direct reference in this release
Functional annotation source
View annotation sources

Functional annotation source: OH1004 · LXL04_018269 · 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:0006355 regulation of DNA-templated transcription Biological Process
GO:0005634 nucleus Cellular Component
GO:0005737 cytoplasm Cellular Component
GO:0000976 transcription cis-regulatory region binding Molecular Function
GO:0003677 DNA binding Molecular Function
GO:0003700 DNA-binding transcription factor activity Molecular Function
GO:0003729 mRNA binding Molecular Function
GO:0008270 zinc ion binding Molecular Function
KEGG gene cross-reference
ath:AT1G32360
ath:AT2G35430
ath:AT3G19360
dosa:Os08g0159800
osa:4344715
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.

Nucleus0.810
Rank 1 · TkA01G049050 · TK1151
Cytoplasm0.255
Rank 2 · TkA01G049050 · TK1151
Cell membrane0.045
Rank 3 · TkA01G049050 · TK1151
Endoplasmic reticulum0.020
Rank 4 · TkA01G049050 · TK1151
Lysosome / Vacuole0.018
Rank 5 · TkA01G049050 · 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.

PF19242Zn_finger_prot57-122 aa
PF16131Torus58-119 aa
PF25427zf-CCCH_UNK92-124 aa
PF00642zf-CCCH93-117 aa
PF25585zf-CCCH_DUS3L94-119 aa
PF18044zf-CCCH_496-116 aa
PF18345zf_CCCH_499-116 aa
PF14608zf-CCCH_299-116 aa
Gene IDDomain IDDomain NameStart aaEnd aaE-valueScore
TkA01G049050PF19242Zn_finger_prot571220.1212.9
TkA01G049050PF16131Torus581190.0007320.8
TkA01G049050PF25427zf-CCCH_UNK921240.009316.6
TkA01G049050PF00642zf-CCCH931172.1e-2072.8
TkA01G049050PF25585zf-CCCH_DUS3L941191.7e-1351.0
TkA01G049050PF18044zf-CCCH_4961162.8e-1246.8
TkA01G049050PF18345zf_CCCH_4991161.1e-1041.9
TkA01G049050PF14608zf-CCCH_2991160.0001522.8
TkA01G049050PF08352oligo_HPY1011172.39.4
TkA01G049050PF25542zf-CCCH_121041170.001419.0
TkA01G049050PF22623zf-CCCH_91101160.6110.6
TkA01G049050PF16131Torus1421920.0007320.8
TkA01G049050PF25542zf-CCCH_121651930.001419.0
TkA01G049050PF25427zf-CCCH_UNK1651930.009316.6
TkA01G049050PF00642zf-CCCH1671932.1e-2072.8
TkA01G049050PF19242Zn_finger_prot1681930.1212.9

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
Q9LQM3Arabidopsis thalianasp|Q9LQM3|C3H12_ARATH Zinc finger CCCH domain-containing protein 1261.200%Swiss-ProtHigh
Q5PP65Arabidopsis thalianasp|Q5PP65|C3H28_ARATH Zinc finger CCCH domain-containing protein 2836.700%Swiss-ProtMedium
Q9LT81Arabidopsis thalianasp|Q9LT81|C3H39_ARATH Zinc finger CCCH domain-containing protein 3933.700%Swiss-ProtMedium
Q84UQ3Oryza sativa subsp. japonicasp|Q84UQ3|C3H56_ORYSJ Zinc finger CCCH domain-containing protein 5666.600%Swiss-ProtHigh
Q6L5G1Oryza sativa subsp. japonicasp|Q6L5G1|C3H39_ORYSJ Zinc finger CCCH domain-containing protein 3966.700%Swiss-ProtLow

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