LXL04_007169 | RubberDandelionOmics

Gene overview

LXL04_007169

Reference: OH-1004 Chr: Chr02 Coordinates: 38062758-38064123 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

861 bp · LXL04_007169|LXL04_007169|OH1004|cDNA

aTGGAAGCTAGAGAGAGAGACGCTATCTATCAAAATAGTTCGCCTCAAGCTAATCGGGTACCGTTTTCCATCTTCAGTTATCCACCTTTGAATTCTTCAAATGCTACAAGAAGAGAACCAGACCCAGATCCAGATCCAGCTGAGCCAGTGTCTGAAACacggccaccaccaccgccaccgccgccaTTGGAAGCGGTGGTCCGATATCGGGAATGCCTGAAAAACCATGCTGCCAGCATGGGCGCACATGTTGTAGATGG...

CDS

Download CDS FASTA

861 bp · LXL04_007169|LXL04_007169|OH1004|CDS

ATGGAAGCTAGAGAGAGAGACGCTATCTATCAAAATAGTTCGCCTCAAGCTAATCGGGTACCGTTTTCCATCTTCAGTTATCCACCTTTGAATTCTTCAAATGCTACAAGAAGAGAACCAGACCCAGATCCAGATCCAGCTGAGCCAGTGTCTGAAACACGGCCACCACCACCGCCACCGCCGCCATTGGAAGCGGTGGTCCGATATCGGGAATGCCTGAAAAACCATGCTGCCAGCATGGGCGCACATGTTGTAGATGG...

Protein

Download Protein FASTA

286 aa · LXL04_007169|LXL04_007169|OH1004|PROTEIN

MEARERDAIYQNSSPQANRVPFSIFSYPPLNSSNATRREPDPDPDPAEPVSETRPPPPPPPPLEAVVRYRECLKNHAASMGAHVVDGCGEFLANGEEGTPEGLKCAACECHRSFHRREVEGELSVTHVPPIHNPPPRSATMQRPHQQQQQQHFRYHRQTPPIMMAFGGNGVAPTESSSEDLDIYRTHAGRHIMEQPSKKRFRTKFSEEQKEKMNDFAERIGWKIQKQHEQEILQFCNEVGLKRNVFKVWMHNSKQAMKKK...

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_007169`
TK1151 ID	TkA03G129970
OH-1004 ID	LXL04_007169
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

Expand to load variant records for this gene.

Basic Information and Functional Annotation

Gene ID LXL04_007169

Location Chr02:38062758-38064123 (+)

Description Similar to ZHD6: Zinc-finger homeodomain protein 6

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At2g18350`	Putative transcription factor.	No verified direct reference in this release
`At2g02540`	Putative transcription factor.	No verified direct reference in this release
`At1g14440`	Putative transcription factor.	No verified direct reference in this release
`At3g50890`	Putative transcription factor.	No verified direct reference in this release
`At1g75240`	Putative transcription factor.	Nuclear import and DNA binding of the ZHD5 transcription factor is modulated by a competitive peptide inhibitor in Arabidopsis.2011 · DOI: 10.1074/jbc.m110.167692 Auxin Response Factor2 (ARF2) and its regulated homeodomain gene HB33 mediate abscisic acid response in Arabidopsis.2011 · DOI: 10.1371/journal.pgen.1002172

Rice

No hit for this species in the current source table.

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_007169 · 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:0009737 response to abscisic acid 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:0048574 long-day photoperiodism, flowering 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

GO:0008270 zinc ion binding Molecular Function

KEGG gene cross-reference

ath:AT1G14440

ath:AT1G75240

ath:AT2G02540

ath:AT2G18350

ath:AT3G50890

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.

Nucleus0.948

Rank 1 · LXL04_007169 · OH-1004

Cytoplasm0.134

Rank 2 · LXL04_007169 · OH-1004

Cell membrane0.024

Rank 3 · LXL04_007169 · OH-1004

Endoplasmic reticulum0.016

Rank 4 · LXL04_007169 · OH-1004

Mitochondrion0.014

Rank 5 · LXL04_007169 · 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.

PF04770.18ZF-HD_dimer67-119 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_007169	`PF04770.18`	ZF-HD_dimer	67	119	2.3e-29	102.2

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
`Q9ZPW7`	Arabidopsis thaliana	Zinc-finger homeodomain protein 6	50.230%	Swiss-Prot	strong database homology
`O64722`	Arabidopsis thaliana	Zinc-finger homeodomain protein 3	45.622%	Swiss-Prot	moderate database homology
`Q9M9S0`	Arabidopsis thaliana	Zinc-finger homeodomain protein 4	45.673%	Swiss-Prot	moderate database homology
`Q9SVL0`	Arabidopsis thaliana	Zinc-finger homeodomain protein 7	43.320%	Swiss-Prot	moderate database homology
`Q9FRL5`	Arabidopsis thaliana	Zinc-finger homeodomain protein 5	43.478%	Swiss-Prot	moderate database homology

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