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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_017840
Reference: OH-1004 Chr: Chr04 Coordinates: 2178509-2182035 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

Download cDNA FASTA

2793 bp · LXL04_017840|LXL04_017840|OH1004|cDNA

ATGTTGTCCGAATTGGGTAGGCGGCCAATGATCGGTGGCGGTGGCGAAGGTTCCTTCGGAGACGAATTTGAAAAGGAGATAGGATTAATACTCCGTGACTCACGGCGTGAAGCCGATGATCATGAAAAAGAGCTAAACATGTACCGAAGTGGTTCCGCACCACCTACCGTAGAGGGTTCATTAAGTGCAGTTGGTGGCTTATTCAACACCACTCACGGCCAAAACAACAACAGTCTACCCCTCTCTGAATTCGCCGGCGG...

CDS

Download CDS FASTA

2793 bp · LXL04_017840|LXL04_017840|OH1004|CDS

ATGTTGTCCGAATTGGGTAGGCGGCCAATGATCGGTGGCGGTGGCGAAGGTTCCTTCGGAGACGAATTTGAAAAGGAGATAGGATTAATACTCCGTGACTCACGGCGTGAAGCCGATGATCATGAAAAAGAGCTAAACATGTACCGAAGTGGTTCCGCACCACCTACCGTAGAGGGTTCATTAAGTGCAGTTGGTGGCTTATTCAACACCACTCACGGCCAAAACAACAACAGTCTACCCCTCTCTGAATTCGCCGGCGG...

Protein

Download Protein FASTA

930 aa · LXL04_017840|LXL04_017840|OH1004|PROTEIN

MLSELGRRPMIGGGGEGSFGDEFEKEIGLILRDSRREADDHEKELNMYRSGSAPPTVEGSLSAVGGLFNTTHGQNNNSLPLSEFAGGNGFTSEEELRADPAYLSYYYSNVNLNPRLPPPLLSKEDWRFTQRLQSGAGSGLGGIGDRRKPNRNDGGGGSGGVSLFSMPPGFNSKKQEQNDNSDSEKVKVSAEWGGDGLIGLPGLGLGSKQKSLAEIFQDDLTRSNPPSGHPSRPASRTAFETPEETLAQVDADLAPPHGAK...

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_017840
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_017840
LocationChr04:2178509-2182035 (-)
DescriptionSimilar to APUM1: Pumilio homolog 1
Arabidopsis / Rice Reference Genes and Papers

Download references for this gene

Arabidopsis

Reference gene IDPossible functionPapers / DOI
At2g29200 Sequence-specific RNA-binding protein that regulates translation and mRNA stability by binding the 3'-UTR of target mRNAs. No verified direct reference in this release
At2g29140 Sequence-specific RNA-binding protein that regulates translation and mRNA stability by binding the 3'-UTR of target mRNAs. No verified direct reference in this release
At2g29190 Sequence-specific RNA-binding protein that regulates translation and mRNA stability by binding the 3'-UTR of target mRNAs. No verified direct reference in this release
At3g10360 Sequence-specific RNA-binding protein that regulates translation and mRNA stability by binding the 3'-UTR of target mRNAs. No verified direct reference in this release
At3g20250 Sequence-specific RNA-binding protein that regulates translation and mRNA stability by binding the 3'-UTR of target mRNAs. No verified direct reference in this release

Rice

No hit for this species in the current source table.

Functional annotation source
View annotation sources

Functional annotation source: OH1004 · LXL04_017840 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)
GO:0006417 regulation of translation Biological Process
GO:0010608 post-transcriptional regulation of gene expression Biological Process
GO:0005737 cytoplasm Cellular Component
GO:0003723 RNA binding Molecular Function
GO:0003729 mRNA binding Molecular Function
GO:0003730 mRNA 3'-UTR binding Molecular Function
KEGG gene cross-reference
ath:AT2G29140
ath:AT2G29190
ath:AT2G29200
ath:AT3G10360
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.

Cytoplasm0.711
Rank 1 · LXL04_017840 · OH-1004
Nucleus0.228
Rank 2 · LXL04_017840 · OH-1004
Cell membrane0.122
Rank 3 · LXL04_017840 · OH-1004
Lysosome / Vacuole0.071
Rank 4 · LXL04_017840 · OH-1004
Golgi apparatus0.064
Rank 5 · LXL04_017840 · 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.

PF07990.18NABP289-355 aa
PF07990.18NABP372-426 aa
PF07990.18NABP437-594 aa
PF00806.26PUF599-632 aa
PF00806.26PUF636-665 aa
PF00806.26PUF671-704 aa
PF22493.3PUF_NOP9709-786 aa
PF00806.26PUF713-737 aa
Gene IDDomain IDDomain NameStart aaEnd aaE-valueScore
LXL04_017840PF07990.18NABP2893551.9e-78265.4
LXL04_017840PF07990.18NABP3724261.9e-78265.4
LXL04_017840PF07990.18NABP4375941.9e-78265.4
LXL04_017840PF00806.26PUF5996322.1e-86283.4
LXL04_017840PF00806.26PUF6366652.1e-86283.4
LXL04_017840PF00806.26PUF6717042.1e-86283.4
LXL04_017840PF22493.3PUF_NOP97097861.2e-2074.7
LXL04_017840PF00806.26PUF7137372.1e-86283.4
LXL04_017840PF00806.26PUF7437782.1e-86283.4
LXL04_017840PF00806.26PUF7828132.1e-86283.4
LXL04_017840PF00806.26PUF8178502.1e-86283.4
LXL04_017840PF00806.26PUF8628912.1e-86283.4

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
Q9ZW07Arabidopsis thalianaPumilio homolog 157.438%Swiss-Protstrong database homology
Q9ZW02Arabidopsis thalianaPumilio homolog 357.413%Swiss-Protstrong database homology
Q9ZW06Arabidopsis thalianaPumilio homolog 257.609%Swiss-Protstrong database homology
Q9SS47Arabidopsis thalianaPumilio homolog 461.031%Swiss-Protmoderate database homology
Q9LJX4Arabidopsis thalianaPumilio homolog 553.441%Swiss-Protmoderate database homology

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