LXL04_004643 | RubberDandelionOmics

Gene overview

LXL04_004643

Reference: OH-1004 Chr: Chr01 Coordinates: 142277035-142277673 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

639 bp · LXL04_004643|LXL04_004643|OH1004|cDNA

ATGGAAATCATCGAAGACGAtgcatcttcttcttcctcatctTCATCTCAGATCGAGGCTAGCGAAACACTCTCACCGCCATCAATACCAAAGAAGCGGAAAGCTGGGAGAAAAAAGCTTAAAGAAACAAGACACCCGGTGTACAGAGGTGTACGGCTAAGAAACGGATCGAAATGGGTGTGCGAAGTTCGGGAACCAAGAAAGAAATCAAGAATCTGGCTGGGCACATTCCCGACCCCTGAAATGGCAGCTAGGGCTTA...

CDS

Download CDS FASTA

639 bp · LXL04_004643|LXL04_004643|OH1004|CDS

ATGGAAATCATCGAAGACGATGCATCTTCTTCTTCCTCATCTTCATCTCAGATCGAGGCTAGCGAAACACTCTCACCGCCATCAATACCAAAGAAGCGGAAAGCTGGGAGAAAAAAGCTTAAAGAAACAAGACACCCGGTGTACAGAGGTGTACGGCTAAGAAACGGATCGAAATGGGTGTGCGAAGTTCGGGAACCAAGAAAGAAATCAAGAATCTGGCTGGGCACATTCCCGACCCCTGAAATGGCAGCTAGGGCTTA...

Protein

Download Protein FASTA

212 aa · LXL04_004643|LXL04_004643|OH1004|PROTEIN

MEIIEDDASSSSSSSSQIEASETLSPPSIPKKRKAGRKKLKETRHPVYRGVRLRNGSKWVCEVREPRKKSRIWLGTFPTPEMAARAYDTATLALRGDDSPLNFPDSAHLIKRAKSSSPHDIREAALESAYAFTPEHYEDRSATSAVSTFDRSEKLAVEVPEMAFVDEEALFNMPGFYNNLAEGLVITPPAMKNGFDWSEYTDSDMELTLWKY

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_004643`
TK1151 ID	TkA01G129040
OH-1004 ID	LXL04_004643
Relationship / confidence	Rbh Sequence Supported / Probable
Protein identity (%)	94.800
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

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Basic Information and Functional Annotation

Gene ID LXL04_004643

Location Chr01:142277035-142277673 (+)

Description Similar to DREB1F: Dehydration-responsive element-binding protein 1F

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At5g51990`	Transcriptional activator that binds specifically to the DNA sequence 5'-[AG]CCGAC-3'.	Transcription factor CBF4 is a regulator of drought adaptation in Arabidopsis.2002 · DOI: 10.1104/pp.006478
`At4g25470`	Transcriptional activator that binds specifically to the DNA sequence 5'-[AG]CCGAC-3'.	Genetic and molecular analyses of natural variation indicate CBF2 as a candidate gene for underlying a freezing tolerance quantitative trait locus in Arabidopsis.2005 · DOI: 10.1104/pp.105.068510
`At4g25490`	Transcriptional activator that binds specifically to the DNA sequence 5'-[AG]CCGAC-3'.	Genetic and molecular analyses of natural variation indicate CBF2 as a candidate gene for underlying a freezing tolerance quantitative trait locus in Arabidopsis.2005 · DOI: 10.1104/pp.105.068510

Rice

Reference gene ID	Possible function	Papers / DOI
`Os01g0968800`	Transcriptional activator that binds specifically to the DNA sequence 5'-[AG]CCGAC-3'.	No verified direct reference in this release
`UniProt: A2WZI4`	Transcriptional activator that binds specifically to the DNA sequence 5'-[AG]CCGAC-3'.	No verified direct reference in this release

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_004643 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0006351 DNA-templated transcription Biological Process

GO:0009409 response to cold Biological Process

GO:0009414 response to water deprivation Biological Process

GO:0009631 cold acclimation Biological Process

GO:0009738 abscisic acid-activated signaling pathway Biological Process

GO:0019760 glucosinolate metabolic process 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:0003677 DNA binding Molecular Function

GO:0003700 DNA-binding transcription factor activity Molecular Function

KEGG gene cross-reference

ath:AT4G25470

ath:AT4G25490

ath:AT5G51990

dosa:Os01g0968800

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.

Nucleus0.960

Rank 1 · LXL04_004643 · OH-1004

Cytoplasm0.095

Rank 2 · LXL04_004643 · OH-1004

Cell membrane0.031

Rank 3 · LXL04_004643 · OH-1004

Endoplasmic reticulum0.023

Rank 4 · LXL04_004643 · OH-1004

Plastid0.018

Rank 5 · LXL04_004643 · 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.

PF00847.27AP246-96 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_004643	`PF00847.27`	AP2	46	96	7.8e-14	52.4

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
`Q9FJ93`	Arabidopsis thaliana	Dehydration-responsive element-binding protein 1D	48.148%	Swiss-Prot	moderate database homology
`Q9SYS6`	Arabidopsis thaliana	Dehydration-responsive element-binding protein 1C	45.550%	Swiss-Prot	moderate database homology
`P93835`	Arabidopsis thaliana	Dehydration-responsive element-binding protein 1B	47.644%	Swiss-Prot	moderate database homology
`Q8S9Z5`	Oryza sativa subsp. japonica	Dehydration-responsive element-binding protein 1F	50.575%	Swiss-Prot	strong database homology
`A2WZI4`	Oryza sativa subsp. indica	Dehydration-responsive element-binding protein 1F	50.575%	Swiss-Prot	strong database homology

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