LXL04_025163 | RubberDandelionOmics

Gene overview

LXL04_025163

Reference: OH-1004 Chr: Chr05 Coordinates: 106982749-106983546 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

798 bp · LXL04_025163|LXL04_025163|OH1004|cDNA

ATGGACCTAAAACACCCCACCACCAAAATCCCTGAACCTGAAAGTGATACCCCACCTCGTTCCCAATCAATCAAGCTACCATCCTTCACAAACGGAATAGCCCACCACCCTCCGCCGCCGTCTACGGTGGTTGCATATAGAGAATGTCTCAAGAACCATGCCGCCAGCATAGGCGGCCACGCCTTAGACGGCTGCGGTGAGTTCATGCCTTCTCCGACTTGCACCCCAACAGAACCTAAAACTCTTAAATGCGCAGCGTG...

CDS

Download CDS FASTA

798 bp · LXL04_025163|LXL04_025163|OH1004|CDS

ATGGACCTAAAACACCCCACCACCAAAATCCCTGAACCTGAAAGTGATACCCCACCTCGTTCCCAATCAATCAAGCTACCATCCTTCACAAACGGAATAGCCCACCACCCTCCGCCGCCGTCTACGGTGGTTGCATATAGAGAATGTCTCAAGAACCATGCCGCCAGCATAGGCGGCCACGCCTTAGACGGCTGCGGTGAGTTCATGCCTTCTCCGACTTGCACCCCAACAGAACCTAAAACTCTTAAATGCGCAGCGTG...

Protein

Download Protein FASTA

265 aa · LXL04_025163|LXL04_025163|OH1004|PROTEIN

MDLKHPTTKIPEPESDTPPRSQSIKLPSFTNGIAHHPPPPSTVVAYRECLKNHAASIGGHALDGCGEFMPSPTCTPTEPKTLKCAACGCHRNFHRRETTNDFPSTVTRNHSHFIDFNRPYQTSTSTSTSPSPPSPPPQPTNYAFGGHLMLSLSTAADRMTPPTAIKSSGRKRFRTKFSQEQKDKMMIFAERLGWKMQRCDDNKIADFCNEIGIKRGIFKVWMHNNKNTFGKREKDTTGAAVAVVRSDDSTGHENGSGTNG...

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_025163`
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_025163

Location Chr05:106982749-106983546 (+)

Description Similar to ZHD9: Zinc-finger homeodomain protein 9

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At3g28920`	Putative transcription factor.	No verified direct reference in this release
`At5g15210`	Putative transcription factor.	No verified direct reference in this release
`At1g69600`	Transcription factor involved in the up-regulation of several stress-inducible genes.	Co-expression of the stress-inducible zinc finger homeodomain ZFHD1 and NAC transcription factors enhances expression of the ERD1 gene in Arabidopsis.2007 · DOI: 10.1111/j.1365-313x.2006.02932.x
`At4g24660`	Essential protein.	No verified direct reference in this release
`At2g02540`	Putative transcription factor.	No verified direct reference in this release

Rice

No hit for this species in the current source table.

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_025163 · 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:0009414 response to water deprivation Biological Process

GO:0009793 embryo development ending in seed dormancy 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

GO:0008270 zinc ion binding Molecular Function

GO:0042803 protein homodimerization activity Molecular Function

KEGG gene cross-reference

ath:AT1G69600

ath:AT2G02540

ath:AT3G28920

ath:AT4G24660

ath:AT5G15210

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.

Nucleus0.971

Rank 1 · LXL04_025163 · OH-1004

Cytoplasm0.100

Rank 2 · LXL04_025163 · OH-1004

Cell membrane0.019

Rank 3 · LXL04_025163 · OH-1004

Endoplasmic reticulum0.010

Rank 4 · LXL04_025163 · OH-1004

Mitochondrion0.010

Rank 5 · LXL04_025163 · 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.

PF04770.18ZF-HD_dimer44-98 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_025163	`PF04770.18`	ZF-HD_dimer	44	98	1.1e-28	100.0

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
`Q9LHF0`	Arabidopsis thaliana	Zinc-finger homeodomain protein 9	44.203%	Swiss-Prot	moderate database homology
`Q9LXG0`	Arabidopsis thaliana	Zinc-finger homeodomain protein 8	45.267%	Swiss-Prot	moderate database homology
`Q9SEZ1`	Arabidopsis thaliana	Zinc-finger homeodomain protein 11	48.241%	Swiss-Prot	moderate database homology
`Q9SB61`	Arabidopsis thaliana	Zinc-finger homeodomain protein 2	45.960%	Swiss-Prot	moderate database homology
`O64722`	Arabidopsis thaliana	Zinc-finger homeodomain protein 3	36.364%	Swiss-Prot	moderate database homology

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