LXL04_008718 | RubberDandelionOmics

Gene overview

LXL04_008718

Reference: OH-1004 Chr: Chr02 Coordinates: 106858546-106859725 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

900 bp · LXL04_008718|LXL04_008718|OH1004|cDNA

ATGGATTCTTGGAGCTTTGACTCTAAAACAAATATGGGGTCTATGGATTGGGAAGCCAAGTCCCCATTTATCTTTGAGAACAATATGGTTTGTTCCCATGATGCAATAAGCATTAACCAAGGATTTGAGGATACCTGTGTTCCTGATCAAATCCTCGGGAGTTTTTCGTTGAGTCCGATTATGGGTGGCACTCATAACAAATTTCTTGAAGAACATGCACCGAGTTCTGAGTTATCGGGTTCTTCTTTCAAGTCAAGTGG...

CDS

Download CDS FASTA

900 bp · LXL04_008718|LXL04_008718|OH1004|CDS

ATGGATTCTTGGAGCTTTGACTCTAAAACAAATATGGGGTCTATGGATTGGGAAGCCAAGTCCCCATTTATCTTTGAGAACAATATGGTTTGTTCCCATGATGCAATAAGCATTAACCAAGGATTTGAGGATACCTGTGTTCCTGATCAAATCCTCGGGAGTTTTTCGTTGAGTCCGATTATGGGTGGCACTCATAACAAATTTCTTGAAGAACATGCACCGAGTTCTGAGTTATCGGGTTCTTCTTTCAAGTCAAGTGG...

Protein

Download Protein FASTA

299 aa · LXL04_008718|LXL04_008718|OH1004|PROTEIN

MDSWSFDSKTNMGSMDWEAKSPFIFENNMVCSHDAISINQGFEDTCVPDQILGSFSLSPIMGGTHNKFLEEHAPSSELSGSSFKSSGLFDIIPHAPSKQKRISSPPLCKVHGCNKSLVSCKDYHKRHKVCELHSKTSKVIVNGIEQRFCQQCSRFHLLSEFDEGKRSCRKRLADHNERRRKPHSGHHERLLPPYNPKGSKFKGFTRTRGAKSSSMCNDDIGTMSSVTDVHQYPWIYGHNNGYLQPSNSVLFPHASECLTG...

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_008718`
TK1151 ID	TkA03G342400
OH-1004 ID	LXL04_008718
Relationship / confidence	Rbh High Identity Coverage Synteny / Strict
Protein identity (%)	99.000
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

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_008718

Location Chr02:106858546-106859725 (-)

Description Similar to SPL6: Squamosa promoter-binding-like protein 6

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At1g69170`	Trans-acting factor that binds specifically to the consensus nucleotide sequence 5'-TNCGTACAA-3'.	No verified direct reference in this release
`At1g02065`	Trans-acting factor that binds specifically to the consensus nucleotide sequence 5'-TNCGTACAA-3'.	SPL8, an SBP-box gene that affects pollen sac development in Arabidopsis.2003 · DOI: 10.1105/tpc.010678 Functional dissection of the plant-specific SBP-domain: overlap of the DNA-binding and nuclear localization domains.2005 · DOI: 10.1016/j.jmb.2005.07.013 SPL8, a local regulator in a subset of gibberellin-mediated developmental processes in Arabidopsis.2007 · DOI: 10.1007/s11103-006-9099-6
`At5g43270`	Trans-acting factor that binds specifically to the consensus nucleotide sequence 5'-TNCGTACAA-3'.	No verified direct reference in this release
`At5g50670`	Trans-acting factor that binds specifically to the consensus nucleotide sequence 5'-TNCGTACAA-3'.	No verified direct reference in this release
`At5g50570`	Trans-acting factor that binds specifically to the consensus nucleotide sequence 5'-TNCGTACAA-3'.	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_008718 · 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:0009554 megasporogenesis Biological Process

GO:0009555 pollen development Biological Process

GO:0009556 microsporogenesis Biological Process

GO:0009620 response to fungus Biological Process

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

GO:0010468 regulation of gene expression Biological Process

GO:0030154 cell differentiation Biological Process

GO:0042742 defense response to bacterium Biological Process

GO:0048510 regulation of timing of transition from vegetative to reproductive phase Biological Process

GO:0048653 anther development Biological Process

KEGG gene cross-reference

ath:AT1G02065

ath:AT1G69170

ath:AT5G43270

ath:AT5G50570

ath:AT5G50670

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.

Nucleus0.918

Rank 1 · LXL04_008718 · OH-1004

Cytoplasm0.169

Rank 2 · LXL04_008718 · OH-1004

Cell membrane0.032

Rank 3 · LXL04_008718 · OH-1004

Endoplasmic reticulum0.018

Rank 4 · LXL04_008718 · OH-1004

Plastid0.013

Rank 5 · LXL04_008718 · 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.

PF03110.20SBP108-181 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_008718	`PF03110.20`	SBP	108	181	4.7e-31	107.6

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
`Q94JW8`	Arabidopsis thaliana	Squamosa promoter-binding-like protein 6	74.725%	Swiss-Prot	weak database homology
`Q8GXL3`	Arabidopsis thaliana	Squamosa promoter-binding-like protein 8	71.250%	Swiss-Prot	weak database homology
`Q9S840`	Arabidopsis thaliana	Squamosa promoter-binding-like protein 2	68.750%	Swiss-Prot	weak database homology
`P0DI11`	Arabidopsis thaliana	Squamosa promoter-binding-like protein 13B	44.872%	Swiss-Prot	moderate database homology
`B9DI20`	Arabidopsis thaliana	Squamosa promoter-binding-like protein 13A	44.872%	Swiss-Prot	moderate database homology

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