LXL04_033177 | RubberDandelionOmics

Gene overview

LXL04_033177

Reference: OH-1004 Chr: Chr07 Coordinates: 37764989-37767182 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1614 bp · LXL04_033177|LXL04_033177|OH1004|cDNA

ATGCCGGAGCGAGTTCACGAATTGGAGTTTGACGAATTCGATAAGCTTCTTGGTGAGATACCTCGAGCTACTGTCACACCAAACACGGAAGAATTTGGAGGCTATAATTCTtccaaaaaccccaaaaacCACTACACAAATCCCGAAAATGCTACATTTCTTGATCCATTGAATGACAAAAAGTTTTCCGTGAGAAGGGTTCAGTTCATCGAAGGCGATCTTCTAAACGATCAATCCTTCGCATCTGTTTTCCAAGATTT...

CDS

Download CDS FASTA

1614 bp · LXL04_033177|LXL04_033177|OH1004|CDS

ATGCCGGAGCGAGTTCACGAATTGGAGTTTGACGAATTCGATAAGCTTCTTGGTGAGATACCTCGAGCTACTGTCACACCAAACACGGAAGAATTTGGAGGCTATAATTCTTCCAAAAACCCCAAAAACCACTACACAAATCCCGAAAATGCTACATTTCTTGATCCATTGAATGACAAAAAGTTTTCCGTGAGAAGGGTTCAGTTCATCGAAGGCGATCTTCTAAACGATCAATCCTTCGCATCTGTTTTCCAAGATTT...

Protein

Download Protein FASTA

537 aa · LXL04_033177|LXL04_033177|OH1004|PROTEIN

MPERVHELEFDEFDKLLGEIPRATVTPNTEEFGGYNSSKNPKNHYTNPENATFLDPLNDKKFSVRRVQFIEGDLLNDQSFASVFQDLSIKERPIMLSPPPSSTPFNGVDFNGQQLVAIPMIPNQQQLFFNPQSNLTWRNFENEYNYHPMNVHHFCKNLESQPRSMHHQLPPPSLTRFMNQKGPEKILTRSRGVNPLGSLKFGSFERDDPVSNMVKSDDFGERIYCMAKDQQGCRSLQKKFSEGTREDLEIIFREVIDHVV...

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.

ID Mapping

Input ID	`LXL04_033177`
TK1151 ID	TkA08G237520
OH-1004 ID	LXL04_033177
Relationship / confidence	Rbh High Identity Coverage Synteny / Strict
Protein identity (%)	99.800
Protein coverage (%)	TK1151 100.000 / OH-1004 82.495 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 version	OH-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 ID LXL04_033177

Location Chr07:37764989-37767182 (-)

Description Similar to APUM12: Pumilio homolog 12

Arabidopsis / Rice Reference Genes and Papers

Download references for this gene

Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At5g56510`	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
`At1g78160`	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
`At1g22240`	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
`At4g08840`	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
`At1g35730`	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_033177 · 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:1902039 negative regulation of seed dormancy process Biological Process

GO:0005634 nucleus Cellular Component

GO:0005737 cytoplasm Cellular Component

GO:0009507 chloroplast Cellular Component

GO:0003729 mRNA binding Molecular Function

KEGG gene cross-reference

ath:AT1G22240

ath:AT1G35730

ath:AT1G78160

ath:AT4G08840

ath:AT5G56510

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.

Cytoplasm0.612

Rank 1 · LXL04_033177 · OH-1004

Nucleus0.445

Rank 2 · LXL04_033177 · OH-1004

Cell membrane0.109

Rank 3 · LXL04_033177 · OH-1004

Endoplasmic reticulum0.048

Rank 4 · LXL04_033177 · OH-1004

Lysosome / Vacuole0.024

Rank 5 · LXL04_033177 · 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.

PF00806.26PUF223-256 aa

PF00806.26PUF258-292 aa

PF00806.26PUF299-330 aa

PF00806.26PUF370-404 aa

PF00806.26PUF443-476 aa

PF00806.26PUF483-513 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_033177	`PF00806.26`	PUF	223	256	1.7e-71	235.8
LXL04_033177	`PF00806.26`	PUF	258	292	1.7e-71	235.8
LXL04_033177	`PF00806.26`	PUF	299	330	1.7e-71	235.8
LXL04_033177	`PF00806.26`	PUF	370	404	1.7e-71	235.8
LXL04_033177	`PF00806.26`	PUF	443	476	1.7e-71	235.8
LXL04_033177	`PF00806.26`	PUF	483	513	1.7e-71	235.8

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

Protein	Organism	Description	Identity	Database	Confidence
`Q9LVC3`	Arabidopsis thaliana	Pumilio homolog 12	44.608%	Swiss-Prot	moderate database homology
`Q9C9R6`	Arabidopsis thaliana	Putative pumilio homolog 7, chloroplastic	54.375%	Swiss-Prot	moderate database homology
`Q9LM20`	Arabidopsis thaliana	Putative pumilio homolog 8, chloroplastic	52.888%	Swiss-Prot	moderate database homology
`Q9LDW3`	Arabidopsis thaliana	Pumilio homolog 11	49.096%	Swiss-Prot	moderate database homology
`Q1PFN9`	Arabidopsis thaliana	Pumilio homolog 9	48.225%	Swiss-Prot	moderate database homology

JBrowse

View in Genome Browser

Gene Card