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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

LXL04_017584
Reference: OH-1004 Chr: Chr03 Coordinates: 154360570-154362512 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

Download cDNA FASTA

1188 bp · LXL04_017584|LXL04_017584|OH1004|cDNA

ATGCCGGATAATCGGCGTGTTCAGAGGAACGGTGGCGTCGCTATCGCTTCTTCAAATTCTTCTGTTCATACCATTGAAGAAGCTGTAAGGCGATTGAGAATCCAAACAGATGGGAAAGACGACGGAACTGCCATGGCCGGTTCGATAGCTTTCCCAGATCGCCCAGGTGAACCGGATTGTATATTCTATTTAAGAACCGGCATGTGTGGATATGGAAACACTTGTAGGTTTAATCATCCAACCCACATTGGGCAGcTCAA...

CDS

Download CDS FASTA

1188 bp · LXL04_017584|LXL04_017584|OH1004|CDS

ATGCCGGATAATCGGCGTGTTCAGAGGAACGGTGGCGTCGCTATCGCTTCTTCAAATTCTTCTGTTCATACCATTGAAGAAGCTGTAAGGCGATTGAGAATCCAAACAGATGGGAAAGACGACGGAACTGCCATGGCCGGTTCGATAGCTTTCCCAGATCGCCCAGGTGAACCGGATTGTATATTCTATTTAAGAACCGGCATGTGTGGATATGGAAACACTTGTAGGTTTAATCATCCAACCCACATTGGGCAGCTCAA...

Protein

Download Protein FASTA

395 aa · LXL04_017584|LXL04_017584|OH1004|PROTEIN

MPDNRRVQRNGGVAIASSNSSVHTIEEAVRRLRIQTDGKDDGTAMAGSIAFPDRPGEPDCIFYLRTGMCGYGNTCRFNHPTHIGQLNQHGGGELPERIGEPDCVYFLKTGTCKYGSTCKYNHPRDRRGAGPVVLNMVGLPMRQEEKACAHYIRTGSCKFGVACKFHHPQPSLDGSNTAQLQYTSPPQPPLINGVSPWSLPRATYVSDPLLQTPQTYLPIVQGIGPTQGWSTYMGSLSPVTSGSIYEGGYSLTSSNSNLPE...

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 IDLXL04_017584
Source versionOH-1004 / GCA_047496595.1_OSU_TarKok_2.0
Open Full ID Mapping
SNP / Indel variants and carrier samplesCRA009020 · OH-1004

Expand to load variant records for this gene.

Basic Information and Functional Annotation

Gene IDLXL04_017584
LocationChr03:154360570-154362512 (+)
DescriptionSimilar to At1g04990: Zinc finger CCCH domain-containing protein 3
Arabidopsis / Rice Reference Genes and Papers

Download references for this gene

Arabidopsis

Reference gene IDPossible functionPapers / DOI
At1g04990 Possesses RNA-binding and ribonuclease activities in vitro. No verified direct reference in this release
At2g32930 Zinc finger CCCH domain-containing protein 26. No verified direct reference in this release
At3g02830 Zinc finger CCCH domain-containing protein 33. No verified direct reference in this release

Rice

Reference gene IDPossible functionPapers / DOI
Os01g0917400 Zinc finger CCCH domain-containing protein 12. No verified direct reference in this release
Functional annotation source
View annotation sources

Functional annotation source: OH1004 · LXL04_017584 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)
GO:0006970 response to osmotic stress Biological Process
GO:0017148 negative regulation of translation Biological Process
GO:0005634 nucleus Cellular Component
GO:0005737 cytoplasm Cellular Component
GO:0005829 cytosol Cellular Component
GO:0003677 DNA binding Molecular Function
GO:0003729 mRNA binding Molecular Function
GO:0004518 nuclease activity Molecular Function
GO:0008270 zinc ion binding Molecular Function
GO:0010313 phytochrome binding Molecular Function
GO:0016787 hydrolase activity Molecular Function
GO:0048027 mRNA 5'-UTR binding Molecular Function
KEGG gene cross-reference
ath:AT1G04990
ath:AT2G32930
ath:AT3G02830
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.

Nucleus0.826
Rank 1 · LXL04_017584 · OH-1004
Cytoplasm0.221
Rank 2 · LXL04_017584 · OH-1004
Cell membrane0.040
Rank 3 · LXL04_017584 · OH-1004
Endoplasmic reticulum0.021
Rank 4 · LXL04_017584 · OH-1004
Plastid0.014
Rank 5 · LXL04_017584 · OH-1004

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.

PF00642.31zf-CCCH55-80 aa
PF18345.8zf_CCCH_460-79 aa
PF00642.31zf-CCCH100-124 aa
PF25585.2zf-CCCH_DUS3L100-122 aa
PF18345.8zf_CCCH_4103-122 aa
PF00642.31zf-CCCH145-169 aa
PF00642.31zf-CCCH262-288 aa
PF18345.8zf_CCCH_4267-286 aa
Gene IDDomain IDDomain NameStart aaEnd aaE-valueScore
LXL04_017584PF00642.31zf-CCCH55809.4e-44147.2
LXL04_017584PF18345.8zf_CCCH_460794.3e-2278.2
LXL04_017584PF00642.31zf-CCCH1001249.4e-44147.2
LXL04_017584PF25585.2zf-CCCH_DUS3L1001222.4e-1556.9
LXL04_017584PF18345.8zf_CCCH_41031224.3e-2278.2
LXL04_017584PF00642.31zf-CCCH1451699.4e-44147.2
LXL04_017584PF00642.31zf-CCCH2622889.4e-44147.2
LXL04_017584PF18345.8zf_CCCH_42672864.3e-2278.2
LXL04_017584PF14608.13zf-CCCH_22672872.7e-1660.1
LXL04_017584PF00642.31zf-CCCH3053299.4e-44147.2
LXL04_017584PF18345.8zf_CCCH_43093284.3e-2278.2

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
Q94AD9Arabidopsis thalianaZinc finger CCCH domain-containing protein 343.373%Swiss-Protmoderate database homology
O48772Arabidopsis thalianaZinc finger CCCH domain-containing protein 2644.554%Swiss-Protmoderate database homology
Q8GXX7Arabidopsis thalianaZinc finger CCCH domain-containing protein 3341.351%Swiss-Protmoderate database homology
Q5JLB5Oryza sativa subsp. japonicaZinc finger CCCH domain-containing protein 1238.303%Swiss-Protmoderate database homology

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