LXL04_002690 | RubberDandelionOmics

Gene overview

LXL04_002690

Reference: OH-1004 Chr: Chr01 Coordinates: 55174443-55185520 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1113 bp · LXL04_002690|LXL04_002690|OH1004|cDNA

atgtcAAGCAGCAGCTGCATAGATGTAGCAGCAGCATCCGAACAACTTTGTTATATCCCTTGTAACTTTTGCAATATTGTTCTTGCGGTGAGTGTACCATGCAGCAGCTTGTTTGACATTGTGACAGTTAGATGTGGACACTGCACCAATCTGTGGTCTGTGAATATGGGCATGGCTGCTGCCTTTCACCAGTCTCTCTCAAATTCTAATTCCACCTCCCAAGATTGTACTTCTCATCAACATGGCCAGGCTCCCAACCA...

CDS

Download CDS FASTA

1113 bp · LXL04_002690|LXL04_002690|OH1004|CDS

ATGTCAAGCAGCAGCTGCATAGATGTAGCAGCAGCATCCGAACAACTTTGTTATATCCCTTGTAACTTTTGCAATATTGTTCTTGCGGTGAGTGTACCATGCAGCAGCTTGTTTGACATTGTGACAGTTAGATGTGGACACTGCACCAATCTGTGGTCTGTGAATATGGGCATGGCTGCTGCCTTTCACCAGTCTCTCTCAAATTCTAATTCCACCTCCCAAGATTGTACTTCTCATCAACATGGCCAGGCTCCCAACCA...

Protein

Download Protein FASTA

370 aa · LXL04_002690|LXL04_002690|OH1004|PROTEIN

MSSSSCIDVAAASEQLCYIPCNFCNIVLAVSVPCSSLFDIVTVRCGHCTNLWSVNMGMAAAFHQSLSNSNSTSQDCTSHQHGQAPNHTPPNYRVDLGSASKYNRMPTRPSQASITNDQKINRPPEKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPHIHFGLMLEANNHQAKLDEDLLKTHIGPRTPKPLTFPKKRLWGLKNAQIQEQSRSFENSYWFEKSQIVNFFEKTISGAKKRSNTSSLGSFE...

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_002690`
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_002690

Location Chr01:55174443-55185520 (-)

Description Similar to YAB5: Axial regulator YABBY 5

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At2g26580`	Promotes adaxial cell identity.	No verified direct reference in this release
`At1g08465`	Involved in the abaxial cell fate determination during embryogenesis and organogenesis.	No verified direct reference in this release

Rice

Reference gene ID	Possible function	Papers / DOI
`Os03g0650000`	Protein YABBY 2.	No verified direct reference in this release
`Os12g0621100`	Protein YABBY 6.	No verified direct reference in this release
`Os04g0536300`	May be involved in leaf cell growth and differentiation, rather than abaxial cell fate determination.	No verified direct reference in this release

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_002690 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0003002 regionalization Biological Process

GO:0006355 regulation of DNA-templated transcription Biological Process

GO:0009944 polarity specification of adaxial/abaxial axis Biological Process

GO:0010154 fruit development Biological Process

GO:0010158 abaxial cell fate specification Biological Process

GO:0045165 cell fate commitment Biological Process

GO:0050793 regulation of developmental process Biological Process

GO:1902183 regulation of shoot apical meristem development Biological Process

GO:2000024 regulation of leaf development Biological Process

GO:0005634 nucleus Cellular Component

GO:0000976 transcription cis-regulatory region binding Molecular Function

GO:0003700 DNA-binding transcription factor activity Molecular Function

KEGG gene cross-reference

ath:AT1G08465

ath:AT2G26580

dosa:Os03g0650000

dosa:Os04g0536300

dosa:Os12g0621100

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.

Nucleus0.571

Rank 1 · LXL04_002690 · OH-1004

Cytoplasm0.418

Rank 2 · LXL04_002690 · OH-1004

Cell membrane0.075

Rank 3 · LXL04_002690 · OH-1004

Endoplasmic reticulum0.060

Rank 4 · LXL04_002690 · OH-1004

Mitochondrion0.053

Rank 5 · LXL04_002690 · 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.

PF24868.1YABBY_N12-61 aa

PF04690.20YABBY114-174 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_002690	`PF24868.1`	YABBY_N	12	61	5.3e-28	97.1
LXL04_002690	`PF04690.20`	YABBY	114	174	4.2e-37	127.1

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
`Q8GW46`	Arabidopsis thaliana	Axial regulator YABBY 5	70.455%	Swiss-Prot	weak database homology
`Q9XFB0`	Arabidopsis thaliana	Putative axial regulator YABBY 2	51.531%	Swiss-Prot	weak database homology
`Q10FZ7`	Oryza sativa subsp. japonica	Protein YABBY 2	52.198%	Swiss-Prot	weak database homology
`Q2QM17`	Oryza sativa subsp. japonica	Protein YABBY 6	50.505%	Swiss-Prot	weak database homology
`Q0JBF0`	Oryza sativa subsp. japonica	Protein YABBY 5	51.795%	Swiss-Prot	weak database homology

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