LXL04_005464 | RubberDandelionOmics

Gene overview

LXL04_005464

Reference: OH-1004 Chr: Chr01 Coordinates: 164624354-164626123 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1770 bp · LXL04_005464|LXL04_005464|OH1004|cDNA

ATGTGTATGTCTGGGTCTGTGGCAAATCTCGGCGGTAGCGTTGAAGGTTGCCGGAAGGACGAGTGGTCGGAGCTACAACCCATCCCGGCGGAGTTTGAGCTTCAACAACGAAGATTCGGAGGTGGATTGGAAGACTGGGAAAGCCTGTTGTCTGAATCTACGGCTTCTCCGGCACAAGACCAGTCTCTTCGGTGGATCTCCGGCGACTTTGAAGACACATCTTTGAGTCTTCAACAGCTATTGCAGAGCAATCAAGTTGA...

CDS

Download CDS FASTA

1770 bp · LXL04_005464|LXL04_005464|OH1004|CDS

ATGTGTATGTCTGGGTCTGTGGCAAATCTCGGCGGTAGCGTTGAAGGTTGCCGGAAGGACGAGTGGTCGGAGCTACAACCCATCCCGGCGGAGTTTGAGCTTCAACAACGAAGATTCGGAGGTGGATTGGAAGACTGGGAAAGCCTGTTGTCTGAATCTACGGCTTCTCCGGCACAAGACCAGTCTCTTCGGTGGATCTCCGGCGACTTTGAAGACACATCTTTGAGTCTTCAACAGCTATTGCAGAGCAATCAAGTTGA...

Protein

Download Protein FASTA

589 aa · LXL04_005464|LXL04_005464|OH1004|PROTEIN

MCMSGSVANLGGSVEGCRKDEWSELQPIPAEFELQQRRFGGGLEDWESLLSESTASPAQDQSLRWISGDFEDTSLSLQQLLQSNQVDQNAPPATLTETPAPLNFHPQNPIFFPFSNPDQNPQMILTPLPHLTPPPQIQFLHQGLQKAPLFHQGLQKSPAFHQNLQKSPDSDLGLQKGSVNQGLQKVAILNHGNEVLLKKPLMVPGPKQGPPQTPSAPPHHHHQNQLICDQLFTAAELILSGNFTHAQGILARLNHQFSSA...

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_005464`
Source version	OH-1004 / GCA_047496595.1_OSU_TarKok_2.0

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SNP / Indel variants and carrier samplesCRA009020 · OH-1004

Expand to load variant records for this gene.

Basic Information and Functional Annotation

Gene ID LXL04_005464

Location Chr01:164624354-164626123 (-)

Description Similar to SCL6: Scarecrow-like protein 6

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At4g00150`	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
`At3g60630`	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_005464 · 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: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:0005737 cytoplasm Cellular Component

GO:0000976 transcription cis-regulatory region binding Molecular Function

GO:0003700 DNA-binding transcription factor activity 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.

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.

Nucleus0.952

Rank 1 · LXL04_005464 · OH-1004

Cytoplasm0.119

Rank 2 · LXL04_005464 · OH-1004

Cell membrane0.023

Rank 3 · LXL04_005464 · OH-1004

Endoplasmic reticulum0.020

Rank 4 · LXL04_005464 · OH-1004

Plastid0.015

Rank 5 · LXL04_005464 · 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.

PF03514.21GRAS229-588 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_005464	`PF03514.21`	GRAS	229	588	1e-90	305.1

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
`O81316`	Arabidopsis thaliana	Scarecrow-like protein 6	43.046%	Swiss-Prot	moderate database homology
`Q7XJM8`	Arabidopsis thaliana	Scarecrow-like protein 27	45.550%	Swiss-Prot	moderate database homology
`Q9M000`	Arabidopsis thaliana	Scarecrow-like protein 22	46.766%	Swiss-Prot	moderate database homology
`O23210`	Arabidopsis thaliana	Scarecrow-like protein 15	34.817%	Swiss-Prot	moderate database homology

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