LXL04_009962 | RubberDandelionOmics

Gene overview

LXL04_009962

Reference: OH-1004 Chr: Chr02 Coordinates: 136775115-136777063 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1140 bp · LXL04_009962|LXL04_009962|OH1004|cDNA

ATGGAAGTGTTTACCGGCGACCATGGGCTGCCAAGCGACGGCGTCCTCTTCCCGGATACACACCTATCTCCCTTTTCTCTACCCACAACCGATACCTTCACCGATCAGCATAAAATCTCAATCGACCACCACCATTTTCTTCCCCCGCAGCCGCCGCAAAAGCTCCGTCCAATTAGATGCAATGGACGCAGTTTTACGGACTGTTGTTCCTCAGATGATCCCCTTGATACAAAGCCGCTTAGCTGGCAGCCGGAGACTGG...

CDS

Download CDS FASTA

1140 bp · LXL04_009962|LXL04_009962|OH1004|CDS

ATGGAAGTGTTTACCGGCGACCATGGGCTGCCAAGCGACGGCGTCCTCTTCCCGGATACACACCTATCTCCCTTTTCTCTACCCACAACCGATACCTTCACCGATCAGCATAAAATCTCAATCGACCACCACCATTTTCTTCCCCCGCAGCCGCCGCAAAAGCTCCGTCCAATTAGATGCAATGGACGCAGTTTTACGGACTGTTGTTCCTCAGATGATCCCCTTGATACAAAGCCGCTTAGCTGGCAGCCGGAGACTGG...

Protein

Download Protein FASTA

379 aa · LXL04_009962|LXL04_009962|OH1004|PROTEIN

MEVFTGDHGLPSDGVLFPDTHLSPFSLPTTDTFTDQHKISIDHHHFLPPQPPQKLRPIRCNGRSFTDCCSSDDPLDTKPLSWQPETGFYDTEIGDASFIPPKASALGLSTKECQTEAALSSSDESSKLQEPIDQEPVNKKKRKRKSRKKLESFIESMMQSVLEKQEQMHRQLMEILDQKESERIKREETWKKQELERAKREEHARKQEVSRSLALVTFIQNTLGQKIEIPNPQENQTEENCKSDTGNEIYDPNNNLEEVE...

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_009962`
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_009962

Location Chr02:136775115-136777063 (-)

Description Similar to GT-2: Trihelix transcription factor GT-2

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At1g76890`	Probable transcription factor that binds specific DNA sequence.	No verified direct reference in this release
`At5g28300`	Probable transcription factor that binds specific DNA sequence.	No verified direct reference in this release
`At1g76880`	Transcription repressor that negatively regulates root hair growth by directly binding RSL4 promoter and repressing RSL4 expression.	No verified direct reference in this release
`At1g33240`	Transcription repressor that binds specific DNA sequence such as GT3 box 5'-GGTAAA-3' in the SDD1 promoter.	The trihelix transcription factor GTL1 regulates ploidy-dependent cell growth in the Arabidopsis trichome.2009 · DOI: 10.1105/tpc.109.068387 The Arabidopsis GTL1 transcription factor regulates water use efficiency and drought tolerance by modulating stomatal density via transrepression of SDD1.2010 · DOI: 10.1105/tpc.110.078691 GTL1 and DF1 regulate root hair growth through transcriptional repression of ROOT HAIR DEFECTIVE 6-LIKE 4 in Arabidopsis.2018 · DOI: 10.1242/dev.159707
`At5g03680`	Transcription factor that prevents growth.	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_009962 · 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:0019760 glucosinolate metabolic process Biological Process

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

GO:0048354 mucilage biosynthetic process involved in seed coat development Biological Process

GO:0048358 mucilage pectin biosynthetic process Biological Process

GO:0048768 root hair cell tip growth Biological Process

GO:0005634 nucleus Cellular Component

GO:0000976 transcription cis-regulatory region binding Molecular Function

GO:0000987 cis-regulatory region sequence-specific DNA binding Molecular Function

GO:0003700 DNA-binding transcription factor activity Molecular Function

GO:0005516 calmodulin binding Molecular Function

KEGG gene cross-reference

ath:AT1G76880

ath:AT1G76890

ath:AT5G28300

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.

Nucleus0.976

Rank 1 · LXL04_009962 · OH-1004

Cytoplasm0.070

Rank 2 · LXL04_009962 · OH-1004

Cell membrane0.024

Rank 3 · LXL04_009962 · OH-1004

Endoplasmic reticulum0.015

Rank 4 · LXL04_009962 · OH-1004

Plastid0.011

Rank 5 · LXL04_009962 · 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.

PF13837.13Myb_DNA-bind_4266-355 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_009962	`PF13837.13`	Myb_DNA-bind_4	266	355	1.4e-22	80.6

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.

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Protein	Organism	Description	Identity	Database	Confidence
`Q39117`	Arabidopsis thaliana	Trihelix transcription factor GT-2	34.322%	Swiss-Prot	moderate database homology
`Q8H181`	Arabidopsis thaliana	Trihelix transcription factor GTL2	27.586%	Swiss-Prot	weak database homology
`Q9C6K3`	Arabidopsis thaliana	Trihelix transcription factor DF1	47.826%	Swiss-Prot	weak database homology
`Q9C882`	Arabidopsis thaliana	Trihelix transcription factor GTL1	44.792%	Swiss-Prot	weak database homology
`Q9LZS0`	Arabidopsis thaliana	Trihelix transcription factor PTL	26.667%	Swiss-Prot	weak database homology

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