LXL04_013752 | RubberDandelionOmics

Gene overview

LXL04_013752

Reference: OH-1004 Chr: Chr03 Coordinates: 35445072-35447323 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1191 bp · LXL04_013752|LXL04_013752|OH1004|cDNA

ATGTCATTCAAAAACATCGTTCGGGAGCTGAAGGAGATGAGGGACGTGATCGGAAGCATGTCAAGAAGAGGAGTCGAAGGGAAACACTGGAGAAATTCTACTCGATCACATATTGCGCCTGATGTTCCTCCATCAGATTCAACAACTGAAGGCCGGTGGGCACACTTACCTCCTGAACTGCTTTTAGACATAATTCGTAGAGTTGAAGAGAGTGAAACATCTTGGCCTGCAAGAACTGTTGTTGTTTATTGTGCATCGGT...

CDS

Download CDS FASTA

1191 bp · LXL04_013752|LXL04_013752|OH1004|CDS

ATGTCATTCAAAAACATCGTTCGGGAGCTGAAGGAGATGAGGGACGTGATCGGAAGCATGTCAAGAAGAGGAGTCGAAGGGAAACACTGGAGAAATTCTACTCGATCACATATTGCGCCTGATGTTCCTCCATCAGATTCAACAACTGAAGGCCGGTGGGCACACTTACCTCCTGAACTGCTTTTAGACATAATTCGTAGAGTTGAAGAGAGTGAAACATCTTGGCCTGCAAGAACTGTTGTTGTTTATTGTGCATCGGT...

Protein

Download Protein FASTA

396 aa · LXL04_013752|LXL04_013752|OH1004|PROTEIN

MSFKNIVRELKEMRDVIGSMSRRGVEGKHWRNSTRSHIAPDVPPSDSTTEGRWAHLPPELLLDIIRRVEESETSWPARTVVVYCASVCKPWRDITKEIVKTPEECGRLTFPISLKQPGPRDSPIQCYIKRDRATSTFRLYYGLSPSEDESDKLLLAAKKIRRATSTEFLISLVADDFSRASSTYVGKLRSNFLGTKFIMYDSQPPNNEPFHPKSNHSHSSRRFHTKQISPRLPAYNYQIATITYELNVLRTRGPRRITSQ...

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_013752`
TK1151 ID	TkA02G473890
OH-1004 ID	LXL04_013752
Relationship / confidence	Rbh High Identity Coverage Synteny / Strict
Protein identity (%)	100.000
Protein coverage (%)	TK1151 100.000 / OH-1004 100.000 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

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SNP / Indel variants and carrier samplesCRA009020 · OH-1004

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Basic Information and Functional Annotation

Gene ID LXL04_013752

Location Chr03:35445072-35447323 (-)

Description Similar to TULP2: Tubby-like F-box protein 2

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At2g18280`	Tubby-like F-box protein 2.	No verified direct reference in this release
`At1g47270`	Tubby-like F-box protein 6.	No verified direct reference in this release
`At2g47900`	Involved in abiotic stress signaling.	The subcellular localization of Tubby-like proteins and participation in stress signaling and root colonization by the mutualist Piriformospora indica.2012 · DOI: 10.1104/pp.112.201319

Rice

Reference gene ID	Possible function	Papers / DOI
`Os02g0705300`	Tubby-like F-box protein 5.	No verified direct reference in this release
`Os07g0667000`	Tubby-like F-box protein 11.	No verified direct reference in this release

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_013752 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0006355 regulation of DNA-templated transcription Biological Process

GO:0009555 pollen development Biological Process

GO:0009620 response to fungus Biological Process

GO:0009651 response to salt stress Biological Process

GO:0042542 response to hydrogen peroxide Biological Process

GO:0071470 cellular response to osmotic stress Biological Process

GO:0005634 nucleus Cellular Component

GO:0005654 nucleoplasm Cellular Component

GO:0005737 cytoplasm Cellular Component

GO:0005829 cytosol Cellular Component

GO:0005886 plasma membrane Cellular Component

GO:0009507 chloroplast Cellular Component

KEGG gene cross-reference

ath:AT1G47270

ath:AT2G18280

ath:AT2G47900

dosa:Os02g0705300

dosa:Os07g0667000

These KEGG gene identifiers are linked through homologous proteins; they do not establish pathway function for this gene.

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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.

Cytoplasm0.458

Rank 1 · LXL04_013752 · OH-1004

Nucleus0.360

Rank 2 · LXL04_013752 · OH-1004

Cell membrane0.344

Rank 3 · LXL04_013752 · OH-1004

Endoplasmic reticulum0.055

Rank 4 · LXL04_013752 · OH-1004

Plastid0.039

Rank 5 · LXL04_013752 · OH-1004

LocPro · Direct prediction · Computational prediction, not experimental localization

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Predicted Functional Domains

Domain results are from Pfam-A/HMMER; positions are amino-acid coordinates on the protein sequence.

PF01167.25Tub114-391 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_013752	`PF01167.25`	Tub	114	391	8.5e-98	327.8

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
`Q8GVE5`	Arabidopsis thaliana	Tubby-like F-box protein 2	62.808%	Swiss-Prot	strong database homology
`Q0WPY0`	Arabidopsis thaliana	Tubby-like F-box protein 6	56.386%	Swiss-Prot	strong database homology
`Q8VY21`	Arabidopsis thaliana	Tubby-like F-box protein 3	52.657%	Swiss-Prot	strong database homology
`Q6Z2G9`	Oryza sativa subsp. japonica	Tubby-like F-box protein 5	59.908%	Swiss-Prot	strong database homology
`Q8H485`	Oryza sativa subsp. japonica	Tubby-like F-box protein 11	53.253%	Swiss-Prot	strong database homology

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