LXL04_000398 | RubberDandelionOmics

Gene overview

LXL04_000398

Reference: OH-1004 Chr: Chr01 Coordinates: 7398808-7400741 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1011 bp · LXL04_000398|LXL04_000398|OH1004|cDNA

ATGGAGAAACATGAAGAATTGGGTGTGGAATCGTTTCAATTCGGCGAAGACGATATTCAGAGCCTGATGTCGGTGGTACCACCGCCTGAGGCCGGCAATTCTTTCACGGCTCTTCTCGAACTCCCACCAAACCAGGCCGTGAAGCTCTTACACTCCCCTGAAGAAACCACACCCAGTATATTCCCCCCTTCTGTGTTTCCCACCATGGACACCGACAATTCGCTGGAGACGACGAGCTCAATTCTCCCAAATTCGAGCCC...

CDS

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1011 bp · LXL04_000398|LXL04_000398|OH1004|CDS

ATGGAGAAACATGAAGAATTGGGTGTGGAATCGTTTCAATTCGGCGAAGACGATATTCAGAGCCTGATGTCGGTGGTACCACCGCCTGAGGCCGGCAATTCTTTCACGGCTCTTCTCGAACTCCCACCAAACCAGGCCGTGAAGCTCTTACACTCCCCTGAAGAAACCACACCCAGTATATTCCCCCCTTCTGTGTTTCCCACCATGGACACCGACAATTCGCTGGAGACGACGAGCTCAATTCTCCCAAATTCGAGCCC...

Protein

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336 aa · LXL04_000398|LXL04_000398|OH1004|PROTEIN

MEKHEELGVESFQFGEDDIQSLMSVVPPPEAGNSFTALLELPPNQAVKLLHSPEETTPSIFPPSVFPTMDTDNSLETTSSILPNSSPNFSNLVKQEPIDSDSPHNSSPMHSDPIISKLTKRKEREKKVKPSAKKIKNVATETDGEKLPYVHVRARRGQATDSHSLAERARREKINARMKLLQELVPGCNKISGTAMVLDEIINHVQTLQRQVEFLSMRLAAVHPCIDINLDNIFSAESGSLMDCNFAGMVSLQGQMNGNS...

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_000398`
TK1151 ID	TkA01G614470
OH-1004 ID	LXL04_000398
Relationship / confidence	Rbh High Identity Coverage Synteny / Strict
Protein identity (%)	97.300
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_000398

Location Chr01:7398808-7400741 (-)

Description Similar to BHLH48: Transcription factor bHLH48

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At2g42300`	Transcription factor bHLH48.	No verified direct reference in this release
`At3g57800`	Transcription factor bHLH60.	No verified direct reference in this release
`At4g34530`	Transcription factor that binds DNA to G box 5'-CACGTG-3' and, to a lower extent, to E-box 5'-CANNTG-3' in vitro.	Photoexcited CRY2 interacts with CIB1 to regulate transcription and floral initiation in Arabidopsis.2008 · DOI: 10.1126/science.1163927 Multiple bHLH proteins form heterodimers to mediate CRY2-dependent regulation of flowering-time in Arabidopsis.2013 · DOI: 10.1371/journal.pgen.1003861

Rice

Reference gene ID	Possible function	Papers / DOI
`UniProt: B8AH97`	Together with BCL1, positive regulator of cell elongation at least partially through increased gibberellic acid (GA) biosynthesis.	No verified direct reference in this release
`Os02g0705500`	Together with BCL1, positive regulator of cell elongation at least partially through increased gibberellic acid (GA) biosynthesis.	Modulation of Rice Leaf Angle and Grain Size by Expressing OsBCL1 and OsBCL2 under the Control of OsBUL1 Promoter.2021 · DOI: 10.3390/ijms22157792

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_000398 · 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:0009637 response to blue light Biological Process

GO:0009740 gibberellic acid mediated signaling pathway Biological Process

GO:0009908 flower development Biological Process

GO:0009911 positive regulation of flower development Biological Process

GO:0010372 positive regulation of gibberellin biosynthetic process Biological Process

GO:0045824 negative regulation of innate immune response Biological Process

GO:0051510 regulation of unidimensional cell growth Biological Process

GO:0005634 nucleus Cellular Component

GO:0003677 DNA binding Molecular Function

GO:0003700 DNA-binding transcription factor activity Molecular Function

KEGG gene cross-reference

ath:AT2G42300

ath:AT3G57800

ath:AT4G34530

dosa:Os02g0705500

osa:4330462

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.

Nucleus0.975

Rank 1 · LXL04_000398 · OH-1004

Cytoplasm0.108

Rank 2 · LXL04_000398 · OH-1004

Cell membrane0.025

Rank 3 · LXL04_000398 · OH-1004

Endoplasmic reticulum0.017

Rank 4 · LXL04_000398 · OH-1004

Plastid0.011

Rank 5 · LXL04_000398 · 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.

PF00010.32HLH162-209 aa

PF23173.3bHLH_SAC51167-211 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_000398	`PF00010.32`	HLH	162	209	5.8e-07	29.9
LXL04_000398	`PF23173.3`	bHLH_SAC51	167	211	5e-06	27.0

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
`Q8VZ02`	Arabidopsis thaliana	Transcription factor bHLH48	48.110%	Swiss-Prot	moderate database homology
`Q3EAI1`	Arabidopsis thaliana	Transcription factor bHLH60	41.067%	Swiss-Prot	moderate database homology
`Q8GY61`	Arabidopsis thaliana	Transcription factor bHLH63	68.750%	Swiss-Prot	weak database homology
`B8AH97`	Oryza sativa subsp. indica	Basic helix-loop-helix protein 79	49.359%	Swiss-Prot	weak database homology
`Q6Z2G7`	Oryza sativa subsp. japonica	Basic helix-loop-helix protein 79	49.359%	Swiss-Prot	weak database homology

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