LXL04_038001 | RubberDandelionOmics

Gene overview

LXL04_038001

Reference: OH-1004 Chr: Chr09 Coordinates: 27963940-27965406 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1398 bp · LXL04_038001|LXL04_038001|OH1004|cDNA

ATGCGAGCATCGGAACTCAATAGATCCGCTATGTCCAACGCCTTTTACTGTCAATCGATGCAAGAATTCGATTCCTTTTGTAAGCCCCAAGCTCAGTGTTTAAATGATCTCAGCCGTGGGACCAAATACGTGGCCAAATCGGAACCCTACTGCACCCTCGAATCCTCCTCCGCTAACGGCAGTTGTACCACCATGTATAAATTGCGCCAGTTAGAGACTGTAATGCTTGGAGATTCCGATTTCGACGATGATGCCGGAAA...

CDS

Download CDS FASTA

1398 bp · LXL04_038001|LXL04_038001|OH1004|CDS

ATGCGAGCATCGGAACTCAATAGATCCGCTATGTCCAACGCCTTTTACTGTCAATCGATGCAAGAATTCGATTCCTTTTGTAAGCCCCAAGCTCAGTGTTTAAATGATCTCAGCCGTGGGACCAAATACGTGGCCAAATCGGAACCCTACTGCACCCTCGAATCCTCCTCCGCTAACGGCAGTTGTACCACCATGTATAAATTGCGCCAGTTAGAGACTGTAATGCTTGGAGATTCCGATTTCGACGATGATGCCGGAAA...

Protein

Download Protein FASTA

465 aa · LXL04_038001|LXL04_038001|OH1004|PROTEIN

MRASELNRSAMSNAFYCQSMQEFDSFCKPQAQCLNDLSRGTKYVAKSEPYCTLESSSANGSCTTMYKLRQLETVMLGDSDFDDDAGNGKSFAGGVVDLPDIEIWKNMMMGFPRRDLKQVLIACAKSVSNNDFSNARFFISELRQMVSVAGEPIQRLGAYMLEGLVARLSSSGSTIYRSDPPLNTYTLYEICPYFKFGYMSANGAIAEAMKDEKRVHIIDFHIAHGTQWVPLIQAFAKRPGGPPHIRITSFHNSTNQLEPV...

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_038001`
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_038001

Location Chr09:27963940-27965406 (+)

Description Similar to PAT1: Scarecrow-like transcription factor PAT1

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At5g48150`	Probable transcription factor involved in phytochrome A (phyA) signal transduction.	No verified direct reference in this release
`At2g04890`	Probable transcription factor involved in plant development.	No verified direct reference in this release
`At1g50600`	Probable transcription factor involved in plant development.	No verified direct reference in this release

Rice

Reference gene ID	Possible function	Papers / DOI
`Os07g0583600`	May play a regulatory role in the early step of oligosaccharide elicitor response, downstream of the membrane- associated high-affinity chitin-binding protein.	Identification and characterization of two new members of the GRAS gene family in rice responsive to N-acetylchitooligosaccharide elicitor.2003 · DOI: 10.1016/s0167-4781(02)00626-7
`Os07g0545800`	May play a regulatory role in the early step of oligosaccharide elicitor response, downstream of the membrane- associated high-affinity chitin-binding protein.	Identification and characterization of two new members of the GRAS gene family in rice responsive to N-acetylchitooligosaccharide elicitor.2003 · DOI: 10.1016/s0167-4781(02)00626-7

Functional annotation source

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Functional annotation source: OH1004 · LXL04_038001 · 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:0009585 red, far-red light phototransduction Biological Process

GO:0009640 photomorphogenesis 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

GO:0043565 sequence-specific DNA binding Molecular Function

KEGG gene cross-reference

ath:AT1G50600

ath:AT2G04890

ath:AT5G48150

dosa:Os07g0545800

dosa:Os07g0583600

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.

Nucleus0.693

Rank 1 · LXL04_038001 · OH-1004

Cytoplasm0.300

Rank 2 · LXL04_038001 · OH-1004

Cell membrane0.070

Rank 3 · LXL04_038001 · OH-1004

Endoplasmic reticulum0.038

Rank 4 · LXL04_038001 · OH-1004

Plastid0.037

Rank 5 · LXL04_038001 · 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.

PF03514.21GRAS116-465 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_038001	`PF03514.21`	GRAS	116	465	2.9e-127	425.4

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
`Q9LDL7`	Arabidopsis thaliana	Scarecrow-like transcription factor PAT1	61.778%	Swiss-Prot	strong database homology
`Q9S7H5`	Arabidopsis thaliana	Scarecrow-like protein 21	64.960%	Swiss-Prot	strong database homology
`Q8H125`	Arabidopsis thaliana	Scarecrow-like protein 5	58.621%	Swiss-Prot	strong database homology
`Q8GVE1`	Oryza sativa subsp. japonica	Chitin-inducible gibberellin-responsive protein 2	55.782%	Swiss-Prot	strong database homology
`Q69VG1`	Oryza sativa subsp. japonica	Chitin-inducible gibberellin-responsive protein 1	54.813%	Swiss-Prot	strong database homology

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