LXL04_024335 | RubberDandelionOmics

Gene overview

LXL04_024335

Reference: OH-1004 Chr: Chr05 Coordinates: 87649535-87650104 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

570 bp · LXL04_024335|LXL04_024335|OH1004|cDNA

ATGGACACGGTGACAGTAATGATGGAGCTCGACAAGCTTCCTGATCCGTTCTCTCTCCCTTTCCATCACCTTTCTTGTTCATCAAGCATAGATTTCTATGGCAAAAGCCACACCAACAACCACCTCATAAAACCACCGCCGCCGCCAACCTTTTACAGTCACCCTACACCACCACTATCGCCATCCAAGAATCCGGTTCCGGTGGATGCGATGAGGGAGATGATGTTCCAGATGGCGGCGTTGCAGCCGATTCAGATCGA...

CDS

Download CDS FASTA

570 bp · LXL04_024335|LXL04_024335|OH1004|CDS

ATGGACACGGTGACAGTAATGATGGAGCTCGACAAGCTTCCTGATCCGTTCTCTCTCCCTTTCCATCACCTTTCTTGTTCATCAAGCATAGATTTCTATGGCAAAAGCCACACCAACAACCACCTCATAAAACCACCGCCGCCGCCAACCTTTTACAGTCACCCTACACCACCACTATCGCCATCCAAGAATCCGGTTCCGGTGGATGCGATGAGGGAGATGATGTTCCAGATGGCGGCGTTGCAGCCGATTCAGATCGA...

Protein

Download Protein FASTA

189 aa · LXL04_024335|LXL04_024335|OH1004|PROTEIN

MDTVTVMMELDKLPDPFSLPFHHLSCSSSIDFYGKSHTNNHLIKPPPPPTFYSHPTPPLSPSKNPVPVDAMREMMFQMAALQPIQIDPESVKPPKRRNVKISKDPQSVAARHRRERISERIRTLQRLVPGGTKMDTASMLDEAVHYMKFLKKQVQSFEQAAAGGSMAATVKTEADVRCLLLHQRHESWW

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_024335`
TK1151 ID	TkAUNG019410
OH-1004 ID	LXL04_024335
Relationship / confidence	Rbh Sequence Supported / Probable
Protein identity (%)	100.000
Protein coverage (%)	TK1151 89.349 / OH-1004 79.894 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

Open Full ID Mapping

SNP / Indel variants and carrier samplesCRA009020 · OH-1004

Expand to load variant records for this gene.

Basic Information and Functional Annotation

Gene ID LXL04_024335

Location Chr05:87649535-87650104 (-)

Description Similar to HEC2: Transcription factor HEC2

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At3g50330`	Required for the female reproductive tract development and fertility.	The HECATE genes regulate female reproductive tract development in Arabidopsis thaliana.2007 · DOI: 10.1242/dev.011510
`At5g67060`	Required for the female reproductive tract development and fertility.	The HECATE genes regulate female reproductive tract development in Arabidopsis thaliana.2007 · DOI: 10.1242/dev.011510
`At3g21330`	Transcription factor bHLH87.	No verified direct reference in this release
`At4g00120`	Transcription regulator required for seed dispersal.	No verified direct reference in this release
`At5g09750`	Required for the female reproductive tract development and fertility.	The HECATE genes regulate female reproductive tract development in Arabidopsis thaliana.2007 · DOI: 10.1242/dev.011510

Rice

No hit for this species in the current source table.

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_024335 · 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:0009266 response to temperature stimulus Biological Process

GO:0010197 polar nucleus fusion Biological Process

GO:0010468 regulation of gene expression Biological Process

GO:0010500 transmitting tissue development Biological Process

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

GO:0048462 carpel formation Biological Process

GO:0048467 gynoecium development Biological Process

GO:0080126 ovary septum development Biological Process

GO:2000012 regulation of auxin polar transport Biological Process

GO:0005634 nucleus Cellular Component

KEGG gene cross-reference

ath:AT3G21330

ath:AT3G50330

ath:AT4G00120

ath:AT5G09750

ath:AT5G67060

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.

Nucleus0.978

Rank 1 · LXL04_024335 · OH-1004

Cytoplasm0.095

Rank 2 · LXL04_024335 · OH-1004

Cell membrane0.021

Rank 3 · LXL04_024335 · OH-1004

Endoplasmic reticulum0.017

Rank 4 · LXL04_024335 · OH-1004

Plastid0.009

Rank 5 · LXL04_024335 · 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.

PF00010.32HLH110-151 aa

PF23173.3bHLH_SAC51112-153 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_024335	`PF00010.32`	HLH	110	151	7.4e-08	32.8
LXL04_024335	`PF23173.3`	bHLH_SAC51	112	153	2.1e-11	44.2

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
`Q9SND4`	Arabidopsis thaliana	Transcription factor HEC2	79.612%	Swiss-Prot	moderate database homology
`Q9FHA7`	Arabidopsis thaliana	Transcription factor HEC1	83.871%	Swiss-Prot	weak database homology
`Q8S3D2`	Arabidopsis thaliana	Transcription factor bHLH87	63.043%	Swiss-Prot	weak database homology
`O81313`	Arabidopsis thaliana	Transcription factor IND	60.606%	Swiss-Prot	moderate database homology
`Q9LXD8`	Arabidopsis thaliana	Transcription factor HEC3	75.000%	Swiss-Prot	weak database homology

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