LXL04_001952 | RubberDandelionOmics

Gene overview

LXL04_001952

Reference: OH-1004 Chr: Chr01 Coordinates: 37851285-37851848 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

564 bp · LXL04_001952|LXL04_001952|OH1004|cDNA

ATGAACCACTCAACTTTCCATAACCAGAAACCCCATAAACACACCACCAAAAGACTCACCGAAGATCAAGTGAGATTACTCGAGTCATGTTTTGACGCGAGCAAAAAACTCGAGCCGGAGAAAAAACACGAGTTGTCCCGCCACCTTGGAATACCTCCACGACAAATAGCCATCTGGTACCAAAACAAAAGGGCACGTTGGAAGAACCAGAGTCTCGAACATGACTACACCATGCTACAACTCCAATTGGAGGCCACTTT...

CDS

Download CDS FASTA

564 bp · LXL04_001952|LXL04_001952|OH1004|CDS

ATGAACCACTCAACTTTCCATAACCAGAAACCCCATAAACACACCACCAAAAGACTCACCGAAGATCAAGTGAGATTACTCGAGTCATGTTTTGACGCGAGCAAAAAACTCGAGCCGGAGAAAAAACACGAGTTGTCCCGCCACCTTGGAATACCTCCACGACAAATAGCCATCTGGTACCAAAACAAAAGGGCACGTTGGAAGAACCAGAGTCTCGAACATGACTACACCATGCTACAACTCCAATTGGAGGCCACTTT...

Protein

Download Protein FASTA

187 aa · LXL04_001952|LXL04_001952|OH1004|PROTEIN

MNHSTFHNQKPHKHTTKRLTEDQVRLLESCFDASKKLEPEKKHELSRHLGIPPRQIAIWYQNKRARWKNQSLEHDYTMLQLQLEATLLETKHLQKEVEHLRGELNKVQVEQARHNRFYSNMNNQPLMESSFSRCGDDVGSSSRSLEDDTGNFYGFGEQVFEVSDMYNGTRGMMGTDIGLFGLKNNLL

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_001952`
TK1151 ID	TkA01G495250
OH-1004 ID	LXL04_001952
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

Expand to load variant records for this gene.

Basic Information and Functional Annotation

Gene ID LXL04_001952

Location Chr01:37851285-37851848 (-)

Description Similar to ATHB-52: Homeobox-leucine zipper protein ATHB-52

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At5g53980`	Probable transcription factor.	No verified direct reference in this release
`At2g18550`	Probable transcription factor.	No verified direct reference in this release

Rice

Reference gene ID	Possible function	Papers / DOI
`UniProt: A2X7U1`	Probable transcription factor.	No verified direct reference in this release
`Os02g0649300`	Probable transcription factor.	No verified direct reference in this release
`Os08g0416000`	Probable transcription activator that binds to the DNA sequence 5'-CAAT[AT]ATTG-3'.	No verified direct reference in this release

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_001952 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0006351 DNA-templated transcription Biological Process

GO:0009637 response to blue light Biological Process

GO:0009646 response to absence of light Biological Process

GO:0009733 response to auxin Biological Process

GO:0045893 positive regulation of DNA-templated transcription Biological Process

GO:0005634 nucleus Cellular Component

GO:0000976 transcription cis-regulatory region binding Molecular Function

GO:0000981 DNA-binding transcription factor activity, RNA polymerase II-specific Molecular Function

GO:0003700 DNA-binding transcription factor activity Molecular Function

GO:0042802 identical protein binding Molecular Function

GO:0043565 sequence-specific DNA binding Molecular Function

KEGG gene cross-reference

ath:AT2G18550

ath:AT5G53980

dosa:Os02g0649300

dosa:Os08g0416000

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.

Nucleus0.979

Rank 1 · LXL04_001952 · OH-1004

Cytoplasm0.083

Rank 2 · LXL04_001952 · OH-1004

Cell membrane0.016

Rank 3 · LXL04_001952 · OH-1004

Endoplasmic reticulum0.010

Rank 4 · LXL04_001952 · OH-1004

Plastid0.008

Rank 5 · LXL04_001952 · 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.

PF00046.36Homeodomain17-69 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_001952	`PF00046.36`	Homeodomain	17	69	7.6e-16	58.4

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
`Q9FN29`	Arabidopsis thaliana	Homeobox-leucine zipper protein ATHB-52	42.748%	Swiss-Prot	moderate database homology
`Q9ZU70`	Arabidopsis thaliana	Homeobox-leucine zipper protein ATHB-21	41.228%	Swiss-Prot	moderate database homology
`A2X7U1`	Oryza sativa subsp. indica	Homeobox-leucine zipper protein HOX24	49.000%	Swiss-Prot	weak database homology
`Q6H6S3`	Oryza sativa subsp. japonica	Homeobox-leucine zipper protein HOX24	49.000%	Swiss-Prot	weak database homology
`Q6ZA74`	Oryza sativa subsp. japonica	Homeobox-leucine zipper protein HOX5	44.792%	Swiss-Prot	moderate database homology

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