LXL04_003018 | RubberDandelionOmics

Gene overview

LXL04_003018

Reference: OH-1004 Chr: Chr01 Coordinates: 65156724-65160341 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

831 bp · LXL04_003018|LXL04_003018|OH1004|cDNA

ATGGAGTGGAACTGGGAGATCGAAATGCCCAAGAGTTTGGCCATTTCTAGCCATGAAAATGGCGATGATTACTCTTTTTCAAGTGTAGTGGAAGAAGGTTCGGTTATATCGGGTGAAGCCTTGATTGGGTTGAAGCTTGGGCGGGCATCATCTTGTTCTCCAATTGTTAAGAGATCTCGAGGTTCGTATCAAAGTTCTCATTTGGCACGTTGTCAAGTTGAAGGGTGCAATCTTGACCTTGCGTCGGCTAAAGATTACCA...

CDS

Download CDS FASTA

831 bp · LXL04_003018|LXL04_003018|OH1004|CDS

ATGGAGTGGAACTGGGAGATCGAAATGCCCAAGAGTTTGGCCATTTCTAGCCATGAAAATGGCGATGATTACTCTTTTTCAAGTGTAGTGGAAGAAGGTTCGGTTATATCGGGTGAAGCCTTGATTGGGTTGAAGCTTGGGCGGGCATCATCTTGTTCTCCAATTGTTAAGAGATCTCGAGGTTCGTATCAAAGTTCTCATTTGGCACGTTGTCAAGTTGAAGGGTGCAATCTTGACCTTGCGTCGGCTAAAGATTACCA...

Protein

Download Protein FASTA

276 aa · LXL04_003018|LXL04_003018|OH1004|PROTEIN

MEWNWEIEMPKSLAISSHENGDDYSFSSVVEEGSVISGEALIGLKLGRASSCSPIVKRSRGSYQSSHLARCQVEGCNLDLASAKDYHRRHRICSDHSKSPKVVVAGMERRFCQQCSRLHDLSEFDDRKRSCRRRLSAHNARRRRPQSEDTSFNSTQRRAHMSFLVNRGLTPSPSSTPQSSSMMPSGSSFHGIMPRHVNHDGLETNSNMIYTMEVQHGFSLQTTTSWGFNGPGEPSSFDQYIHGHNIDLTQPDMPLELQNN...

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_003018`
TK1151 ID	TkA01G403600
OH-1004 ID	LXL04_003018
Relationship / confidence	Multi Source To Oh1004 / Complex relationship
Protein identity (%)	96.600
Protein coverage (%)	TK1151 100.000 / OH-1004 97.101 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

Expand to load variant records for this gene.

Basic Information and Functional Annotation

Gene ID LXL04_003018

Location Chr01:65156724-65160341 (+)

Description Similar to SPL12: Squamosa promoter-binding-like protein 12

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At1g27370`	Trans-acting factor that binds specifically to the consensus nucleotide sequence 5'-TNCGTACAA-3'.	No verified direct reference in this release
`At5g43270`	Trans-acting factor that binds specifically to the consensus nucleotide sequence 5'-TNCGTACAA-3'.	No verified direct reference in this release

Rice

Reference gene ID	Possible function	Papers / DOI
`UniProt: A2YGR5`	Trans-acting factor that binds specifically to the consensus nucleotide sequence 5'-TNCGTACAA-3' (By similarity).	No verified direct reference in this release
`Os06g0703500`	Trans-acting factor that binds specifically to the consensus nucleotide sequence 5'-TNCGTACAA-3' (By similarity).	No verified direct reference in this release
`Os02g0139400`	Trans-acting factor that binds specifically to the consensus nucleotide sequence 5'-TNCGTACAA-3' (By similarity).	No verified direct reference in this release

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_003018 · 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:0010262 somatic embryogenesis Biological Process

GO:0010358 leaf shaping Biological Process

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

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

GO:0048653 anther development Biological Process

GO:0090356 negative regulation of auxin metabolic process Biological Process

GO:0005634 nucleus Cellular Component

GO:0000976 transcription cis-regulatory region binding Molecular Function

GO:0001216 DNA-binding transcription activator activity Molecular Function

GO:0003677 DNA binding Molecular Function

KEGG gene cross-reference

ath:AT1G27370

ath:AT5G43270

dosa:Os06g0703500

osa:4341986

osa:9270639

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.

Nucleus0.943

Rank 1 · LXL04_003018 · OH-1004

Cytoplasm0.139

Rank 2 · LXL04_003018 · OH-1004

Cell membrane0.032

Rank 3 · LXL04_003018 · OH-1004

Endoplasmic reticulum0.020

Rank 4 · LXL04_003018 · OH-1004

Plastid0.016

Rank 5 · LXL04_003018 · 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.

PF03110.20SBP71-144 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_003018	`PF03110.20`	SBP	71	144	1.2e-31	109.6

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
`Q8S9L0`	Arabidopsis thaliana	Squamosa promoter-binding-like protein 10	60.177%	Swiss-Prot	weak database homology
`Q9S840`	Arabidopsis thaliana	Squamosa promoter-binding-like protein 2	50.633%	Swiss-Prot	weak database homology
`A2YGR5`	Oryza sativa subsp. indica	Squamosa promoter-binding-like protein 12	50.993%	Swiss-Prot	weak database homology
`Q5Z818`	Oryza sativa subsp. japonica	Squamosa promoter-binding-like protein 12	50.993%	Swiss-Prot	weak database homology
`A3A2Z8`	Oryza sativa subsp. japonica	Squamosa promoter-binding-like protein 3	52.273%	Swiss-Prot	weak database homology

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