LXL04_026867 | RubberDandelionOmics

Gene overview

LXL04_026867

Reference: OH-1004 Chr: Chr06 Coordinates: 4226071-4231836 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

2253 bp · LXL04_026867|LXL04_026867|OH1004|cDNA

ATGCCCTTACCCTTTGAATTCGAGGGGAAGGGGGTGGTGTGGTTGGAAAACCAGCAAGATTCACAGTTTCTTGTACCTTATGCAAACCCACTTGTACATTTTCAGAATCTGGTGAACAAGAAGAGGAAGTACATCAACGAACCAAGGTCTGTCCTGGATAACATCACCACCAGTCCAAGCCCTCCCGCTTCGACTTCAACCCTGTCTTCTTCTCACGGCGGTGCTGAAACAGCCGGGGTGGCGGCGCTTTCTTCGAAATG...

CDS

Download CDS FASTA

2253 bp · LXL04_026867|LXL04_026867|OH1004|CDS

ATGCCCTTACCCTTTGAATTCGAGGGGAAGGGGGTGGTGTGGTTGGAAAACCAGCAAGATTCACAGTTTCTTGTACCTTATGCAAACCCACTTGTACATTTTCAGAATCTGGTGAACAAGAAGAGGAAGTACATCAACGAACCAAGGTCTGTCCTGGATAACATCACCACCAGTCCAAGCCCTCCCGCTTCGACTTCAACCCTGTCTTCTTCTCACGGCGGTGCTGAAACAGCCGGGGTGGCGGCGCTTTCTTCGAAATG...

Protein

Download Protein FASTA

750 aa · LXL04_026867|LXL04_026867|OH1004|PROTEIN

MPLPFEFEGKGVVWLENQQDSQFLVPYANPLVHFQNLVNKKRKYINEPRSVLDNITTSPSPPASTSTLSSSHGGAETAGVAALSSKWPPPENQETSTSNVGGGLDLHHFQQLPLEEKCGGMEDWENGDSGQDQAMLRWIMGDVEDPSMGLNKMLHGNAGGGPADFDFNGGFGVVDQGFIGLDSGNPVGQIGSLSSNPQLPPSPPSPAMFNNHHHQNQIFSPLNETQMLPFDVKPNLFNPQLPFEHQLLMPPQPKRHNPGS...

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_026867`
TK1151 ID	TkA07G012840
OH-1004 ID	LXL04_026867
Relationship / confidence	Rbh Sequence Supported / Probable
Protein identity (%)	91.200
Protein coverage (%)	TK1151 99.676 / OH-1004 89.200 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_026867

Location Chr06:4226071-4231836 (+)

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

Reference gene ID	Possible function	Papers / DOI
`Os03g0723000`	Probable transcription factor involved in plant development (By similarity).	Crystal Structure of the GRAS Domain of SCARECROW-LIKE7 in Oryza sativa.2016 · DOI: 10.1105/tpc.16.00018

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_026867 · 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:0030154 cell differentiation 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

GO:0003700 DNA-binding transcription factor activity Molecular Function

GO:0043565 sequence-specific DNA binding Molecular Function

KEGG gene cross-reference

ath:AT2G45160

ath:AT3G60630

ath:AT4G00150

ath:AT4G36710

dosa:Os03g0723000

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.

Nucleus0.952

Rank 1 · LXL04_026867 · OH-1004

Cytoplasm0.115

Rank 2 · LXL04_026867 · OH-1004

Cell membrane0.027

Rank 3 · LXL04_026867 · OH-1004

Endoplasmic reticulum0.023

Rank 4 · LXL04_026867 · OH-1004

Plastid0.018

Rank 5 · LXL04_026867 · 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.

PF03514.21GRAS308-669 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_026867	`PF03514.21`	GRAS	308	669	4e-98	329.5

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	49.206%	Swiss-Prot	moderate database homology
`Q7XJM8`	Arabidopsis thaliana	Scarecrow-like protein 27	52.083%	Swiss-Prot	weak database homology
`Q9M000`	Arabidopsis thaliana	Scarecrow-like protein 22	39.714%	Swiss-Prot	moderate database homology
`O23210`	Arabidopsis thaliana	Scarecrow-like protein 15	38.624%	Swiss-Prot	weak database homology
`Q53K16`	Oryza sativa subsp. japonica	SCARECROW-LIKE protein 7	31.233%	Swiss-Prot	weak database homology

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