LXL04_012209 | RubberDandelionOmics

Gene overview

LXL04_012209

Reference: OH-1004 Chr: Chr03 Coordinates: 8296583-8298281 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1173 bp · LXL04_012209|LXL04_012209|OH1004|cDNA

ATGCTTGATCACAACCCCAACATAGAAATGAAGAAAAGTGGCGACTTTGATGAAGAAGATGCACAAAAAGATTACCCCGCCAAGCTAAACCCTGCTTTTCATGATCGTATGGAACAAGAAGATGATGAttttgaagaagatgaagatgatcatGATCATGAATCATCGCAAGAGGTTGATCATGATTCTACTGGTGGTAGTGGACCCAAAAATGGATCAACATCCAGCAACAGCACAGTTGAGGAGATGAGTGATAAGAA...

CDS

Download CDS FASTA

1173 bp · LXL04_012209|LXL04_012209|OH1004|CDS

ATGCTTGATCACAACCCCAACATAGAAATGAAGAAAAGTGGCGACTTTGATGAAGAAGATGCACAAAAAGATTACCCCGCCAAGCTAAACCCTGCTTTTCATGATCGTATGGAACAAGAAGATGATGATTTTGAAGAAGATGAAGATGATCATGATCATGAATCATCGCAAGAGGTTGATCATGATTCTACTGGTGGTAGTGGACCCAAAAATGGATCAACATCCAGCAACAGCACAGTTGAGGAGATGAGTGATAAGAA...

Protein

Download Protein FASTA

390 aa · LXL04_012209|LXL04_012209|OH1004|PROTEIN

MLDHNPNIEMKKSGDFDEEDAQKDYPAKLNPAFHDRMEQEDDDFEEDEDDHDHESSQEVDHDSTGGSGPKNGSTSSNSTVEEMSDKKASGSVTGSVRPYVRSKNPRLRWTPDLHLRFVHAIERLGGQERATPKLVLQLMNIKGLSISHVKSHLQMYRSKKIEDPNQEQGLLNEGDDQHMCNLSQLPMLQTYNRRSLSSYRYQDGLWSPQANLNYDPSNSMTGLNQGLYGSFAERILATNINNIRNNGHSSFNQDHASWRS...

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_012209`
TK1151 ID	TkA02G581690
OH-1004 ID	LXL04_012209
Relationship / confidence	Rbh High Identity Coverage Synteny / Strict
Protein identity (%)	100.000
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

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SNP / Indel variants and carrier samplesCRA009020 · OH-1004

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Basic Information and Functional Annotation

Gene ID LXL04_012209

Location Chr03:8296583-8298281 (+)

Description Similar to At1g14600: Putative Myb family transcription factor At1g14600

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At1g14600`	Putative transcription factor.	No verified direct reference in this release
`At5g42630`	Probable transcription factor that regulates carpel integuments formation.	ABERRANT TESTA SHAPE encodes a KANADI family member, linking polarity determination to separation and growth of Arabidopsis ovule integuments.2006 · DOI: 10.1111/j.1365-313x.2006.02717.x A new dominant Arabidopsis transparent testa mutant, sk21-D, and modulation of seed flavonoid biosynthesis by KAN4.2010 · DOI: 10.1111/j.1467-7652.2010.00525.x
`At1g32240`	Probable transcription factor that regulates lateral organ polarity.	ABERRANT TESTA SHAPE encodes a KANADI family member, linking polarity determination to separation and growth of Arabidopsis ovule integuments.2006 · DOI: 10.1111/j.1365-313x.2006.02717.x KANADI and class III HD-Zip gene families regulate embryo patterning and modulate auxin flow during embryogenesis in Arabidopsis.2007 · DOI: 10.1105/tpc.106.047472

Rice

Reference gene ID	Possible function	Papers / DOI
`Os04g0566600`	Transcriptional repressor that plays a role in the regulation of organ identity and spikelet meristem determinacy.	MORE FLORET1 Encodes a MYB Transcription Factor That Regulates Spikelet Development in Rice.2020 · DOI: 10.1104/pp.20.00658
`Os06g0670300`	Probable transcription factor involved in the regulation of plant height by elongating internode cell length.	OsMPH1 regulates plant height and improves grain yield in rice.2017 · DOI: 10.1371/journal.pone.0180825 OsMYB45 plays an important role in rice resistance to cadmium stress.2017 · DOI: 10.1016/j.plantsci.2017.08.002

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_012209 · 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:0009944 polarity specification of adaxial/abaxial axis Biological Process

GO:0010158 abaxial cell fate specification Biological Process

GO:0010582 floral meristem determinacy Biological Process

GO:0010629 negative regulation of gene expression Biological Process

GO:0030154 cell differentiation Biological Process

GO:0048440 carpel development Biological Process

GO:0048481 plant ovule development Biological Process

GO:0080060 integument development Biological Process

GO:0005634 nucleus Cellular Component

GO:0009505 plant-type cell wall Cellular Component

KEGG gene cross-reference

ath:AT1G14600

ath:AT1G32240

ath:AT5G42630

dosa:Os04g0566600

dosa:Os06g0670300

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.

Nucleus0.982

Rank 1 · LXL04_012209 · OH-1004

Cytoplasm0.078

Rank 2 · LXL04_012209 · OH-1004

Cell membrane0.020

Rank 3 · LXL04_012209 · OH-1004

Endoplasmic reticulum0.011

Rank 4 · LXL04_012209 · OH-1004

Plastid0.009

Rank 5 · LXL04_012209 · 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.

PF00249.38Myb_DNA-binding106-157 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_012209	`PF00249.38`	Myb_DNA-binding	106	157	2.8e-08	34.5

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
`Q700D9`	Arabidopsis thaliana	Putative Myb family transcription factor At1g14600	71.429%	Swiss-Prot	weak database homology
`Q9FJV5`	Arabidopsis thaliana	Probable transcription factor KAN4	56.410%	Swiss-Prot	weak database homology
`Q9C616`	Arabidopsis thaliana	Probable transcription factor KAN2	64.179%	Swiss-Prot	weak database homology
`A3AWH5`	Oryza sativa subsp. japonica	Myb family transcription factor MOF1	70.149%	Swiss-Prot	weak database homology
`A0A0P0X0C0`	Oryza sativa subsp. japonica	Myb family transcription factor MPH1	66.667%	Swiss-Prot	weak database homology

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