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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_021689
Reference: OH-1004 Chr: Chr04 Coordinates: 135200473-135204399 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

Download cDNA FASTA

1578 bp · LXL04_021689|LXL04_021689|OH1004|cDNA

ATGGACCGTACATCACGCGATCCATCGAATCAACGGCTGGAATTTGTTAATCAACTTATGCAATCGCCGCATATATTATTACATCTTTCTCACTTCTCAGTTAGCGTACATGGCGTCATAGTCTATTATACCGAATATACCCTTTTTCAATTCATCATCTTTACCTTATTAGGGTTCTTGATCGTGATCCGTTTAAACCCTAAATCCCCAATTTTTGCGCTAATATCCACTGCCTTGATCTCTATGGATTTCGATGGAGG...

CDS

Download CDS FASTA

1578 bp · LXL04_021689|LXL04_021689|OH1004|CDS

ATGGACCGTACATCACGCGATCCATCGAATCAACGGCTGGAATTTGTTAATCAACTTATGCAATCGCCGCATATATTATTACATCTTTCTCACTTCTCAGTTAGCGTACATGGCGTCATAGTCTATTATACCGAATATACCCTTTTTCAATTCATCATCTTTACCTTATTAGGGTTCTTGATCGTGATCCGTTTAAACCCTAAATCCCCAATTTTTGCGCTAATATCCACTGCCTTGATCTCTATGGATTTCGATGGAGG...

Protein

Download Protein FASTA

525 aa · LXL04_021689|LXL04_021689|OH1004|PROTEIN

MDRTSRDPSNQRLEFVNQLMQSPHILLHLSHFSVSVHGVIVYYTEYTLFQFIIFTLLGFLIVIRLNPKSPIFALISTALISMDFDGGKRVFNRLGPSQQQNDNRNQKVCYHWRAGNCNRFPCPFLHRELSAPANGTMSSKRPYGFATDDQRSTTSRRGGGSNFNGPNTWGRGGGRGGNAINNNNSSSSGSRGAVLKKTEKICNFWAQGTCNYGEKCRFLHSWSSANCFAMLTHLEGHQKVVTGIALPAGSDKLYTGSKDE...

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_021689
TK1151 IDTkA05G416050
OH-1004 IDLXL04_021689
Relationship / confidenceRbh High Identity Coverage Synteny / Strict
Protein identity (%)100.000
Protein coverage (%)TK1151 100.000 / OH-1004 84.571
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 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_021689
LocationChr04:135200473-135204399 (+)
DescriptionSimilar to ZFWD1: Zinc finger CCCH domain-containing protein 48
Arabidopsis / Rice Reference Genes and Papers

Download references for this gene

Arabidopsis

Reference gene IDPossible functionPapers / DOI
At4g25440 Zinc finger CCCH domain-containing protein 48. No verified direct reference in this release
At5g51980 Zinc finger CCCH domain-containing protein 63. No verified direct reference in this release
At5g40880 Zinc finger CCCH domain-containing protein 59. No verified direct reference in this release
At5g49200 Zinc finger CCCH domain-containing protein 62. No verified direct reference in this release

Rice

Reference gene IDPossible functionPapers / DOI
Os02g0677700 Zinc finger CCCH domain-containing protein 17. No verified direct reference in this release
Functional annotation source
View annotation sources

Functional annotation source: OH1004 · LXL04_021689 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)
GO:0005634 nucleus Cellular Component
GO:0003677 DNA binding Molecular Function
GO:0003729 mRNA binding Molecular Function
GO:0008270 zinc ion binding Molecular Function
KEGG gene cross-reference
ath:AT4G25440
ath:AT5G40880
ath:AT5G49200
ath:AT5G51980
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.

Cytoplasm0.496
Rank 1 · LXL04_021689 · OH-1004
Nucleus0.413
Rank 2 · LXL04_021689 · OH-1004
Cell membrane0.096
Rank 3 · LXL04_021689 · OH-1004
Endoplasmic reticulum0.072
Rank 4 · LXL04_021689 · OH-1004
Golgi apparatus0.066
Rank 5 · LXL04_021689 · 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.

PF16131.12Torus184-222 aa
PF00642.31zf-CCCH199-221 aa
PF25585.2zf-CCCH_DUS3L199-221 aa
PF18044.8zf-CCCH_4200-220 aa
PF18345.8zf_CCCH_4202-220 aa
PF23869.2Beta-prop_WDR75_1st222-270 aa
PF23381.2Beta-prop_IFT122_1st227-473 aa
PF25175.2Beta-prop_WDR5229-276 aa
Gene IDDomain IDDomain NameStart aaEnd aaE-valueScore
LXL04_021689PF16131.12Torus1842223.4e-0731.5
LXL04_021689PF00642.31zf-CCCH1992212.5e-0731.2
LXL04_021689PF25585.2zf-CCCH_DUS3L1992212.7e-0731.1
LXL04_021689PF18044.8zf-CCCH_42002201.8e-0628.3
LXL04_021689PF18345.8zf_CCCH_42022204.9e-0730.3
LXL04_021689PF23869.2Beta-prop_WDR75_1st2222702.2e-1041.0
LXL04_021689PF23381.2Beta-prop_IFT122_1st2274732e-2693.7
LXL04_021689PF25175.2Beta-prop_WDR52292762.6e-2693.3
LXL04_021689PF25173.2Beta-prop_WDR3_1st2302745e-31108.5
LXL04_021689PF25174.2Beta-prop_THOC32304074.4e-29102.1
LXL04_021689PF24814.2WD40_Prp192302764.5e-2589.0
LXL04_021689PF00400.39WD402312662.9e-2691.5
LXL04_021689PF24805.2EIF3I2312782.2e-1247.5
LXL04_021689PF23414.2Beta-prop_EML_22424031e-0938.9
LXL04_021689PF25171.2Beta-prop_WDR36-Utp21_1st2614025.2e-0730.1
LXL04_021689PF25173.2Beta-prop_WDR3_1st2944755e-31108.5

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
Q9FNZ2Arabidopsis thalianaZinc finger CCCH domain-containing protein 4864.414%Swiss-Protstrong database homology
Q9FNZ1Arabidopsis thalianaZinc finger CCCH domain-containing protein 6365.152%Swiss-Protstrong database homology
Q9FKR9Arabidopsis thalianaZinc finger CCCH domain-containing protein 5950.789%Swiss-Protmoderate database homology
Q9FE91Arabidopsis thalianaZinc finger CCCH domain-containing protein 6247.493%Swiss-Protmoderate database homology
Q0DYP5Oryza sativa subsp. japonicaZinc finger CCCH domain-containing protein 1761.765%Swiss-Protstrong database homology

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