LXL04_039125 | RubberDandelionOmics

Gene overview

LXL04_039125

Reference: OH-1004 Chr: Chr09 Coordinates: 59760818-59762745 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

717 bp · LXL04_039125|LXL04_039125|OH1004|cDNA

ATGCACGAAAACTTGTCACAATTCGCTCACGAAATGGGGGTTTCATTCGAGCTTGAAGTTGTCAATTTTGATTCGTTCGATCCAAGGTCGTTTTCAGTATCCGGGAACGAAGCCATTGTTGTAAATCTCCCAATCTGGTCAGCTTCCACTCACTTATCCGCCATCCCTTCAATCCTCCATTTCGTGAAACAACTCTCTCCGAAGATCGTCGTCTCACTTGATCGTGGATGTGAAAGGACGGATTTACCTTTCCCACATTA...

CDS

Download CDS FASTA

717 bp · LXL04_039125|LXL04_039125|OH1004|CDS

ATGCACGAAAACTTGTCACAATTCGCTCACGAAATGGGGGTTTCATTCGAGCTTGAAGTTGTCAATTTTGATTCGTTCGATCCAAGGTCGTTTTCAGTATCCGGGAACGAAGCCATTGTTGTAAATCTCCCAATCTGGTCAGCTTCCACTCACTTATCCGCCATCCCTTCAATCCTCCATTTCGTGAAACAACTCTCTCCGAAGATCGTCGTCTCACTTGATCGTGGATGTGAAAGGACGGATTTACCTTTCCCACATTA...

Protein

Download Protein FASTA

238 aa · LXL04_039125|LXL04_039125|OH1004|PROTEIN

MHENLSQFAHEMGVSFELEVVNFDSFDPRSFSVSGNEAIVVNLPIWSASTHLSAIPSILHFVKQLSPKIVVSLDRGCERTDLPFPHYLLQGLQYYEVLLDSIDGGNVVSEISNKIERFLFQPQIESLVLGKLQVPEPMPHWRNSSRLRSLKITGAVLFSRSDPIEEADSGFVENKNKRSRADLLTSDDEFSLSYSPIMFSRSSSVVTEINESRSEIRMTLIYDADAEADEEMLTLMNV

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_039125`
TK1151 ID	TkA04G506040
OH-1004 ID	LXL04_039125
Relationship / confidence	Rbh Below Probable Coverage Or Synteny Threshold / Review
Protein identity (%)	83.700
Protein coverage (%)	TK1151 100.000 / OH-1004 95.378 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_039125

Location Chr09:59760818-59762745 (-)

Description Similar to SCL22: Scarecrow-like protein 22

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At3g60630`	Probable transcription factor involved in plant development.	No verified direct reference in this release
`At2g45160`	Probable transcription factor involved in plant development.	No verified direct reference in this release
`At4g00150`	Probable transcription factor involved in plant development.	No verified direct reference in this release
`At4g36710`	Probable transcription factor involved in plant development.	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_039125 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0006351 DNA-templated transcription Biological Process

GO:0006355 regulation of DNA-templated transcription Biological Process

GO:0007623 circadian rhythm Biological Process

GO:0009610 response to symbiotic fungus Biological Process

GO:0010247 detection of phosphate ion Biological Process

GO:0016036 cellular response to phosphate starvation Biological Process

GO:0030154 cell differentiation Biological Process

GO:0036377 arbuscular mycorrhizal association Biological Process

GO:0048768 root hair cell tip growth Biological Process

GO:0051301 cell division Biological Process

GO:0005634 nucleus Cellular Component

GO:0000976 transcription cis-regulatory region binding Molecular Function

KEGG gene cross-reference

ath:AT2G45160

ath:AT3G60630

ath:AT4G00150

ath:AT4G36710

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.

Nucleus0.550

Rank 1 · LXL04_039125 · OH-1004

Cytoplasm0.443

Rank 2 · LXL04_039125 · OH-1004

Cell membrane0.061

Rank 3 · LXL04_039125 · OH-1004

Mitochondrion0.054

Rank 4 · LXL04_039125 · OH-1004

Endoplasmic reticulum0.046

Rank 5 · LXL04_039125 · 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.

PF03514.21GRAS2-143 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_039125	`PF03514.21`	GRAS	2	143	5.3e-23	82.3

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
`Q9M000`	Arabidopsis thaliana	Scarecrow-like protein 22	44.966%	Swiss-Prot	moderate database homology
`Q7XJM8`	Arabidopsis thaliana	Scarecrow-like protein 27	42.069%	Swiss-Prot	moderate database homology
`O81316`	Arabidopsis thaliana	Scarecrow-like protein 6	40.845%	Swiss-Prot	moderate database homology
`O23210`	Arabidopsis thaliana	Scarecrow-like protein 15	29.927%	Swiss-Prot	weak database homology

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