LXL04_011303 | RubberDandelionOmics

Gene overview

LXL04_011303

Reference: OH-1004 Chr: Chr02 Coordinates: 162263929-162269759 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

816 bp · LXL04_011303|LXL04_011303|OH1004|cDNA

ATGGTACTCCCTTATAAAACCCACCTACGATGTGCTACACCTAGAGCGATAGAAATAGAGATAAGGGTTATATTCAGATTCAGAGAAATTCTCCGTCGGAAGTTGCGTAGAAATTCGCCGATGGGGCGGAGGAAGCTCGAAATAAAGCGGATCGAAGACAAGAGTAGCAGACTGGTGACGTTTTCGAAGCGGAGAACGGGTTTGATTAAGAAAGCACGACAGCTTTCCGTGCTCTGCGACGTCGACGTCGCCGTCATTGT...

CDS

Download CDS FASTA

816 bp · LXL04_011303|LXL04_011303|OH1004|CDS

ATGGTACTCCCTTATAAAACCCACCTACGATGTGCTACACCTAGAGCGATAGAAATAGAGATAAGGGTTATATTCAGATTCAGAGAAATTCTCCGTCGGAAGTTGCGTAGAAATTCGCCGATGGGGCGGAGGAAGCTCGAAATAAAGCGGATCGAAGACAAGAGTAGCAGACTGGTGACGTTTTCGAAGCGGAGAACGGGTTTGATTAAGAAAGCACGACAGCTTTCCGTGCTCTGCGACGTCGACGTCGCCGTCATTGT...

Protein

Download Protein FASTA

271 aa · LXL04_011303|LXL04_011303|OH1004|PROTEIN

MVLPYKTHLRCATPRAIEIEIRVIFRFREILRRKLRRNSPMGRRKLEIKRIEDKSSRLVTFSKRRTGLIKKARQLSVLCDVDVAVIVFSARGKLYEFCSGGTANRVEHILARYEAEGNTTINENGQDLVSLNFLLINTLLGLHSVHTIYTICTTGSPIGTCKELLHTVDRLVEENNSEELSVTDMTQLEEELDAALMLTRSRKTQLMMEYISTLQQQQERNLIKEQEEIVQETASAEKVFGAGDDEGGGRNDLAINQMDS...

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_011303`
Source version	OH-1004 / GCA_047496595.1_OSU_TarKok_2.0

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SNP / Indel variants and carrier samplesCRA009020 · OH-1004

Expand to load variant records for this gene.

Basic Information and Functional Annotation

Gene ID LXL04_011303

Location Chr02:162263929-162269759 (-)

Description Similar to AGL31: Agamous-like MADS-box protein AGL31

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At5g65050`	Probable transcription factor that prevents vernalization by short periods of cold.	No verified direct reference in this release
`At5g10140`	Putative transcription factor that seems to play a central role in the regulation of flowering time in the late-flowering phenotype by interacting with 'FRIGIDA', the autonomous and the vernalization flowering pathways.	No verified direct reference in this release
`At1g77080`	Probable transcription factor involved in the negative regulation of flowering time in both long and short days, probably through the photoperiodic and vernalization pathways.	No verified direct reference in this release
`At5g65060`	Probable transcription factor involved in the negative regulation of flowering time, probably through the photoperiodic and vernalization pathways; more efficient in cv.	No verified direct reference in this release
`At2g45650`	Probable transcription factor.	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_011303 · 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:0006357 regulation of transcription by RNA polymerase II Biological Process

GO:0009266 response to temperature stimulus Biological Process

GO:0009908 flower development Biological Process

GO:0009909 regulation of flower development Biological Process

GO:0009910 negative regulation of flower development Biological Process

GO:0009911 positive regulation of flower development Biological Process

GO:0010048 vernalization response Biological Process

GO:0010221 negative regulation of vernalization response Biological Process

GO:0010228 vegetative to reproductive phase transition of meristem Biological Process

GO:0030154 cell differentiation Biological Process

KEGG gene cross-reference

ath:AT1G77080

ath:AT2G45650

ath:AT5G10140

ath:AT5G65050

ath:AT5G65060

These KEGG gene identifiers are linked through homologous proteins; they do not establish pathway function for this gene.

Open Annotation Module

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.

Nucleus0.898

Rank 1 · LXL04_011303 · OH-1004

Cytoplasm0.159

Rank 2 · LXL04_011303 · OH-1004

Cell membrane0.038

Rank 3 · LXL04_011303 · OH-1004

Endoplasmic reticulum0.027

Rank 4 · LXL04_011303 · OH-1004

Plastid0.016

Rank 5 · LXL04_011303 · 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.

PF00319.24SRF-TF50-97 aa

PF01486.23K-box176-231 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_011303	`PF00319.24`	SRF-TF	50	97	6.9e-25	87.0
LXL04_011303	`PF01486.23`	K-box	176	231	2.3e-07	31.6

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
`Q9FPN7`	Arabidopsis thaliana	Agamous-like MADS-box protein AGL31	37.662%	Swiss-Prot	moderate database homology
`Q9S7Q7`	Arabidopsis thaliana	MADS-box protein FLOWERING LOCUS C	43.275%	Swiss-Prot	moderate database homology
`Q9AT76`	Arabidopsis thaliana	Agamous-like MADS-box protein AGL27	39.130%	Swiss-Prot	moderate database homology
`Q9LSR7`	Arabidopsis thaliana	Agamous-like MADS-box protein AGL70	41.176%	Swiss-Prot	moderate database homology
`P29386`	Arabidopsis thaliana	Agamous-like MADS-box protein AGL6	37.021%	Swiss-Prot	moderate database homology

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