LXL04_024032 | RubberDandelionOmics

Gene overview

LXL04_024032

Reference: OH-1004 Chr: Chr05 Coordinates: 78278187-78280533 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1131 bp · LXL04_024032|LXL04_024032|OH1004|cDNA

ATGGCGTCTCTTCATGATTCGGAAACTAAAGTCCCTTCTCTCTACAGCCGCAAAGAGAAGTCTCTCGGCGTCTTATGCTCCAATTTCTTGAGGCTGTATAACCGAGAAGGCGTTGAATCGATAGGACTTGACAACGCAGCAAACCAATTAGGTGTTGAGAGGCGGCGAATCTACGACATCGTCAACATATTAGAAAGCGTTGGGGTATTGACAAGGAAAGCTAAGAATCAGTATACCTGGAAGGGTTTTAAAGCAATTCC...

CDS

Download CDS FASTA

1131 bp · LXL04_024032|LXL04_024032|OH1004|CDS

ATGGCGTCTCTTCATGATTCGGAAACTAAAGTCCCTTCTCTCTACAGCCGCAAAGAGAAGTCTCTCGGCGTCTTATGCTCCAATTTCTTGAGGCTGTATAACCGAGAAGGCGTTGAATCGATAGGACTTGACAACGCAGCAAACCAATTAGGTGTTGAGAGGCGGCGAATCTACGACATCGTCAACATATTAGAAAGCGTTGGGGTATTGACAAGGAAAGCTAAGAATCAGTATACCTGGAAGGGTTTTAAAGCAATTCC...

Protein

Download Protein FASTA

376 aa · LXL04_024032|LXL04_024032|OH1004|PROTEIN

MASLHDSETKVPSLYSRKEKSLGVLCSNFLRLYNREGVESIGLDNAANQLGVERRRIYDIVNILESVGVLTRKAKNQYTWKGFKAIPHALEELRKQASTNDNLKMSQYCNFGTVANENDSRGPSISNNSNTDSLTKTSGSHKSDTNRKEKSLGLLTQNFIKLFISSKEDLISLDSAATALLGDVHDPTAMRTKVRRLYDIANVFSSMNLLEKMRHPESGKPSFRWLGLKGHQKTECTTLDTNSSKRRAFGTDITNNDNND...

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_024032`
TK1151 ID	TkA06G185940
OH-1004 ID	LXL04_024032
Relationship / confidence	Rbh High Identity Coverage Synteny / Strict
Protein identity (%)	100.000
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_024032

Location Chr05:78278187-78280533 (+)

Description Similar to E2FE: E2F transcription factor-like E2FE

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At3g48160`	Inhibitor of E2F-dependent activation of gene expression.	E2Ls, E2F-like repressors of Arabidopsis that bind to E2F sites in a monomeric form.2002 · DOI: 10.1074/jbc.m200913200 The DP-E2F-like gene DEL1 controls the endocycle in Arabidopsis thaliana.2005 · DOI: 10.1016/j.cub.2004.12.038 Atypical E2F activity restrains APC/CCCS52A2 function obligatory for endocycle onset.2008 · DOI: 10.1073/pnas.0806510105
`At3g01330`	Inhibitor of E2F-dependent activation of gene expression.	E2Ls, E2F-like repressors of Arabidopsis that bind to E2F sites in a monomeric form.2002 · DOI: 10.1074/jbc.m200913200 Role of an atypical E2F transcription factor in the control of Arabidopsis cell growth and differentiation.2004 · DOI: 10.1105/tpc.104.023978
`At5g14960`	Inhibitor of E2F-dependent regulation of gene expression.	E2Ls, E2F-like repressors of Arabidopsis that bind to E2F sites in a monomeric form.2002 · DOI: 10.1074/jbc.m200913200 The E2FD/DEL2 factor is a component of a regulatory network controlling cell proliferation and development in Arabidopsis.2010 · DOI: 10.1007/s11103-009-9577-8

Rice

No hit for this species in the current source table.

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_024032 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

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

GO:0006351 DNA-templated transcription Biological Process

GO:0006355 regulation of DNA-templated transcription Biological Process

GO:0006357 regulation of transcription by RNA polymerase II Biological Process

GO:0008284 positive regulation of cell population proliferation Biological Process

GO:0008285 negative regulation of cell population proliferation Biological Process

GO:0009733 response to auxin Biological Process

GO:0032466 negative regulation of cytokinesis Biological Process

GO:0032876 negative regulation of DNA endoreduplication Biological Process

GO:0032877 positive regulation of DNA endoreduplication Biological Process

GO:0042023 DNA endoreduplication Biological Process

GO:0045892 negative regulation of DNA-templated transcription Biological Process

KEGG gene cross-reference

ath:AT3G01330

ath:AT3G48160

ath:AT5G14960

dre:567941

mmu:52679

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.

Nucleus0.961

Rank 1 · LXL04_024032 · OH-1004

Cytoplasm0.132

Rank 2 · LXL04_024032 · OH-1004

Cell membrane0.017

Rank 3 · LXL04_024032 · OH-1004

Mitochondrion0.015

Rank 4 · LXL04_024032 · OH-1004

Endoplasmic reticulum0.008

Rank 5 · LXL04_024032 · 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.

PF02319.27WHD_E2F_TDP18-82 aa

PF02319.27WHD_E2F_TDP148-227 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_024032	`PF02319.27`	WHD_E2F_TDP	18	82	2.1e-43	146.6
LXL04_024032	`PF02319.27`	WHD_E2F_TDP	148	227	2.1e-43	146.6

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.

Download current result

Protein	Organism	Description	Identity	Database	Confidence
`Q8LSZ4`	Arabidopsis thaliana	E2F transcription factor-like E2FE	48.011%	Swiss-Prot	moderate database homology
`Q8RWL0`	Arabidopsis thaliana	E2F transcription factor-like E2FF	46.866%	Swiss-Prot	moderate database homology
`Q9LFQ9`	Arabidopsis thaliana	E2F transcription factor-like E2FD	40.365%	Swiss-Prot	moderate database homology

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