LXL04_011932 | RubberDandelionOmics

Gene overview

LXL04_011932

Reference: OH-1004 Chr: Chr03 Coordinates: 3012728-3015466 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1947 bp · LXL04_011932|LXL04_011932|OH1004|cDNA

ATGGTACATTCATCATCGAGTTCTGGCATCTTCTTTGAAGGAGATGACCATTCTCAAGGTCTAGCAAATTCACATTTGAGCTCCTACAGGAACTCAAATCTCGTTCCACAAAGCATATACTCAAACATGGTTCCTGTCTCTGGTGATGTAAGCAATACTGTCATGGACAGCATGGCTAGTTCAGGGCTAACCATGGGGGCAAGTTCATTAGTTACAGATGACAACTCAGGGCTTTCAGGAGGTAGTAGTGGTAACCCATG...

CDS

Download CDS FASTA

1947 bp · LXL04_011932|LXL04_011932|OH1004|CDS

ATGGTACATTCATCATCGAGTTCTGGCATCTTCTTTGAAGGAGATGACCATTCTCAAGGTCTAGCAAATTCACATTTGAGCTCCTACAGGAACTCAAATCTCGTTCCACAAAGCATATACTCAAACATGGTTCCTGTCTCTGGTGATGTAAGCAATACTGTCATGGACAGCATGGCTAGTTCAGGGCTAACCATGGGGGCAAGTTCATTAGTTACAGATGACAACTCAGGGCTTTCAGGAGGTAGTAGTGGTAACCCATG...

Protein

Download Protein FASTA

648 aa · LXL04_011932|LXL04_011932|OH1004|PROTEIN

MVHSSSSSGIFFEGDDHSQGLANSHLSSYRNSNLVPQSIYSNMVPVSGDVSNTVMDSMASSGLTMGASSLVTDDNSGLSGGSSGNPCVQRSASINTDSYMRLPASPLSFSSNNVITNNASTATSLPNPRLGQVPFPESSMFPGSVYLDHVAKKPRIDVKNDDILQQQLLRQIQSQNINAAQLQALYLQSLPPGQRAHLLQQQQQQLHLRQNLQPPVNRSYDGGVCSRRLMQYLYHQRQRPADISYWRKFVGEYYSPRAKK...

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_011932`
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_011932

Location Chr03:3012728-3015466 (-)

Description Similar to SLK1: Probable transcriptional regulator SLK1

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At4g25520`	Probable transcription regulator that functions in the development of the carpel margin meristem similarly to SEUSS (SEU).	Involvement of co-repressor LUH and the adapter proteins SLK1 and SLK2 in the regulation of abiotic stress response genes in Arabidopsis.2014 · DOI: 10.1186/1471-2229-14-54
`At5g62090`	Probable transcription regulator that functions in the development of the carpel margin meristem similarly to SEUSS (SEU).	SEUSS and SEUSS-LIKE transcriptional adaptors regulate floral and embryonic development in Arabidopsis.2010 · DOI: 10.1104/pp.109.146183 Involvement of co-repressor LUH and the adapter proteins SLK1 and SLK2 in the regulation of abiotic stress response genes in Arabidopsis.2014 · DOI: 10.1186/1471-2229-14-54
`At4g25515`	Probable transcription regulator that functions in the development of the carpel margin meristem similarly to SEUSS (SEU).	No verified direct reference in this release
`At1g43850`	DNA-binding adapter subunit of the SEU-LUG transcriptional corepressor of the C class floral homeotic gene AGAMOUS during the early stages of floral meristem development.	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_011932 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0000122 negative regulation of transcription by RNA polymerase II Biological Process

GO:0001666 response to hypoxia Biological Process

GO:0006351 DNA-templated transcription Biological Process

GO:0006974 DNA damage response Biological Process

GO:0006979 response to oxidative stress Biological Process

GO:0009617 response to bacterium Biological Process

GO:0009620 response to fungus Biological Process

GO:0009624 response to nematode Biological Process

GO:0009733 response to auxin Biological Process

GO:0009793 embryo development ending in seed dormancy Biological Process

GO:0009908 flower development Biological Process

GO:0009909 regulation of flower development Biological Process

KEGG gene cross-reference

ath:AT1G43850

ath:AT4G25515

ath:AT4G25520

ath:AT5G62090

mgr:MGG_01057

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.

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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.

Nucleus0.965

Rank 1 · LXL04_011932 · OH-1004

Cytoplasm0.103

Rank 2 · LXL04_011932 · OH-1004

Cell membrane0.022

Rank 3 · LXL04_011932 · OH-1004

Endoplasmic reticulum0.012

Rank 4 · LXL04_011932 · OH-1004

Plastid0.011

Rank 5 · LXL04_011932 · 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.

PF01803.22LIM_bind228-479 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_011932	`PF01803.22`	LIM_bind	228	479	3.8e-56	191.0

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.

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Protein	Organism	Description	Identity	Database	Confidence
`Q0WVM7`	Arabidopsis thaliana	Probable transcriptional regulator SLK1	51.152%	Swiss-Prot	moderate database homology
`Q94BP0`	Arabidopsis thaliana	Probable transcriptional regulator SLK2	59.748%	Swiss-Prot	weak database homology
`F4JT98`	Arabidopsis thaliana	Probable transcriptional regulator SLK3	50.115%	Swiss-Prot	moderate database homology
`Q8W234`	Arabidopsis thaliana	Transcriptional corepressor SEUSS	53.310%	Swiss-Prot	weak database homology

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