LXL04_030209 | RubberDandelionOmics

Gene overview

LXL04_030209

Reference: OH-1004 Chr: Chr06 Coordinates: 110848306-110858356 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

818 bp · LXL04_030209|LXL04_030209|OH1004|cDNA

ATGAAGTCGGTGATTGATCGATACCACAAAGCCAAAGATGAACAACAACTAACAACCCCAATTTCAGAGGTCAGGATGCAGATGGAGGAGGAAAACTCAGAAGCAAAACCATCCAAGAGACAGCAGTGGCAGGACTCAGAGTCTTTCCCATTGAAAAATAGAACTACCAAGACCAAAGCAAACGGAACAAGAAGCTGCAAGTCTGATGGGCAAGGGGCAGATTCGGAAAATCTGGAATTGCAGTTCTGGCAAAGGGAGGC...

CDS

Download CDS FASTA

711 bp · LXL04_030209|LXL04_030209|OH1004|CDS

ATGAAGTCGGTGATTGATCGATACCACAAAGCCAAAGATGAACAACAACTAACAACCCCAATTTCAGAGGTCAGGATGCAGATGGAGGAGGAAAACTCAGAAGCAAAACCATCCAAGAGACAGCAGTGGCAGGACTCAGAGTCTTTCCCATTGAAAAATAGAACTACCAAGACCAAAGCAAACGGAACAAGAAGCTGCAAGTCTGATGGGCAAGGGGCAGATTCGGAAAATCTGGAATTGCAGTTCTGGCAAAGGGAGGC...

Protein

Download Protein FASTA

236 aa · LXL04_030209|LXL04_030209|OH1004|PROTEIN

MKSVIDRYHKAKDEQQLTTPISEVRMQMEEENSEAKPSKRQQWQDSESFPLKNRTTKTKANGTRSCKSDGQGADSENLELQFWQREATMLKQQLQSLQENHRRMMGEELSGLSVKDLQGMENQLEMSLKGIRMKKDQLLFEEIEELNRKGSLIHHENVELCTKMTQIREENIQLYNKVYGIRDGETVNRNVFLTNGSSMREDPHPHPPIHLQLSQPDPHEAVEPPLHSTNLGLQLH

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_030209`
TK1151 ID	TkA07G387440
OH-1004 ID	LXL04_030209
Relationship / confidence	Rbh High Identity Coverage Synteny / Strict
Protein identity (%)	99.600
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_030209

Location Chr06:110848306-110858356 (+)

Description Similar to AGL16: Agamous-like MADS-box protein AGL16

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At3g57230`	Probable transcription factor involved in the regulation of flowering time in long-day photoperiod.	MicroRNA-mediated regulation of stomatal development in Arabidopsis.2007 · DOI: 10.1105/tpc.107.050377 miR824-Regulated AGAMOUS-LIKE16 Contributes to Flowering Time Repression in Arabidopsis.2014 · DOI: 10.1105/tpc.114.124685
`At4g37940`	Probable transcription factor.	No verified direct reference in this release
`At2g22630`	Probable transcription factor.	No verified direct reference in this release

Rice

Reference gene ID	Possible function	Papers / DOI
`Os02g0579600`	Probable transcription factor.	No verified direct reference in this release
`Os02g0731200`	Transcriptional factor that targets the CArG motif 5'-C(A/T)TTAAAAAG-3' in the promoter of D14.	The interaction between OsMADS57 and OsTB1 modulates rice tillering via DWARF14.2013 · DOI: 10.1038/ncomms2542

Functional annotation source

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Functional annotation source: OH1004 · LXL04_030209 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0006351 DNA-templated transcription Biological Process

GO:0006357 regulation of transcription by RNA polymerase II Biological Process

GO:0009908 flower development Biological Process

GO:0010440 stomatal lineage progression Biological Process

GO:0045944 positive regulation of transcription by RNA polymerase II Biological Process

GO:0048578 positive regulation of long-day photoperiodism, flowering Biological Process

GO:0048586 regulation of long-day photoperiodism, flowering Biological Process

GO:0005634 nucleus Cellular Component

GO:0000976 transcription cis-regulatory region binding Molecular Function

GO:0000978 RNA polymerase II cis-regulatory region sequence-specific DNA binding Molecular Function

GO:0000981 DNA-binding transcription factor activity, RNA polymerase II-specific Molecular Function

GO:0003700 DNA-binding transcription factor activity Molecular Function

KEGG gene cross-reference

ath:AT2G22630

ath:AT3G57230

ath:AT4G37940

dosa:Os02g0579600

dosa:Os02g0731200

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.

Nucleus0.875

Rank 1 · LXL04_030209 · OH-1004

Cytoplasm0.222

Rank 2 · LXL04_030209 · OH-1004

Cell membrane0.039

Rank 3 · LXL04_030209 · OH-1004

Endoplasmic reticulum0.022

Rank 4 · LXL04_030209 · OH-1004

Mitochondrion0.016

Rank 5 · LXL04_030209 · 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.

PF01486.23K-box75-164 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_030209	`PF01486.23`	K-box	75	164	5.3e-28	97.7

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
`A2RVQ5`	Arabidopsis thaliana	Agamous-like MADS-box protein AGL16	54.902%	Swiss-Prot	moderate database homology
`Q9SZJ6`	Arabidopsis thaliana	Agamous-like MADS-box protein AGL21	49.669%	Swiss-Prot	moderate database homology
`Q38840`	Arabidopsis thaliana	Agamous-like MADS-box protein AGL17	51.748%	Swiss-Prot	moderate database homology
`Q6EP49`	Oryza sativa subsp. japonica	MADS-box transcription factor 27	48.538%	Swiss-Prot	moderate database homology
`Q6Z6W2`	Oryza sativa subsp. japonica	MADS-box transcription factor 57	45.860%	Swiss-Prot	moderate database homology

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