LXL04_027339 | RubberDandelionOmics

Gene overview

LXL04_027339

Reference: OH-1004 Chr: Chr06 Coordinates: 13798440-13803284 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

2832 bp · LXL04_027339|LXL04_027339|OH1004|cDNA

ATGCCGTTGGTGAGGGTCGAGGTGAGAAATGAATACGGATTGGGAATGCCGGAGTTGTACACGGAAACCGATAGAGAAGATCCGAAGGCGGTGCTTGACGGCGTCGCCGTTGCTGGCCTCGTCGGAATCCTGCGTCAATTAGGCGATCTCGCCGAATTTGCAGCAGAAGTTTTTCATGGGTTACAAGAACAAGTGCTAATTACATCTTCTAGAAGCCATAAATTGGTGGAACGAGTATACAACATTGAAGCTGCACTACC...

CDS

Download CDS FASTA

2832 bp · LXL04_027339|LXL04_027339|OH1004|CDS

ATGCCGTTGGTGAGGGTCGAGGTGAGAAATGAATACGGATTGGGAATGCCGGAGTTGTACACGGAAACCGATAGAGAAGATCCGAAGGCGGTGCTTGACGGCGTCGCCGTTGCTGGCCTCGTCGGAATCCTGCGTCAATTAGGCGATCTCGCCGAATTTGCAGCAGAAGTTTTTCATGGGTTACAAGAACAAGTGCTAATTACATCTTCTAGAAGCCATAAATTGGTGGAACGAGTATACAACATTGAAGCTGCACTACC...

Protein

Download Protein FASTA

943 aa · LXL04_027339|LXL04_027339|OH1004|PROTEIN

MPLVRVEVRNEYGLGMPELYTETDREDPKAVLDGVAVAGLVGILRQLGDLAEFAAEVFHGLQEQVLITSSRSHKLVERVYNIEAALPPLEKAILAQRSHLHFAYTAGSHWHTRLRTEQNHFIYSDLPRCIMDSYEDCRDPPRLHKLDKYDIGGPGSCFKRYSDPTYFKRTSSSSPYETHLQNVPKEKKARRYKKKKSSRYRNLTHEAPVTTHAGSMDFGFSNVVEKASPSPDISKFNVPQTSGIDPEIDHLTSFESRNGS...

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_027339`
TK1151 ID	TkA07G051030
OH-1004 ID	LXL04_027339
Relationship / confidence	Sequence Supported Annotation Or Model Conflict / Review
Protein identity (%)	99.700
Protein coverage (%)	TK1151 98.621 / OH-1004 30.329 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_027339

Location Chr06:13798440-13803284 (-)

Description Similar to SCAR3: Protein SCAR3

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At1g29170`	Involved in regulation of actin and microtubule organization.	No verified direct reference in this release
`At2g34150`	Involved in regulation of actin and microtubule organization.	No verified direct reference in this release
`At4g18600`	Scar-like domain-containing protein WAVE 5.	No verified direct reference in this release
`At2g38440`	Involved in regulation of actin and microtubule organization.	DISTORTED3/SCAR2 is a putative arabidopsis WAVE complex subunit that activates the Arp2/3 complex and is required for epidermal morphogenesis.2005 · DOI: 10.1105/tpc.104.027987 IRREGULAR TRICHOME BRANCH1 in Arabidopsis encodes a plant homolog of the actin-related protein2/3 complex activator Scar/WAVE that regulates actin and microtubule organization.2005 · DOI: 10.1105/tpc.104.028670

Rice

Reference gene ID	Possible function	Papers / DOI
`Os01g0208600`	Involved in regulation of actin and microtubule organization.	No verified direct reference in this release

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_027339 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0030036 actin cytoskeleton organization Biological Process

GO:0051127 positive regulation of actin nucleation Biological Process

GO:2000601 positive regulation of Arp2/3 complex-mediated actin nucleation Biological Process

GO:0005634 nucleus Cellular Component

GO:0005737 cytoplasm Cellular Component

GO:0005856 cytoskeleton Cellular Component

GO:0005886 plasma membrane Cellular Component

GO:0009507 chloroplast Cellular Component

GO:0016020 membrane Cellular Component

GO:0031209 SCAR complex Cellular Component

GO:0071944 cell periphery Cellular Component

GO:0003779 actin binding Molecular Function

KEGG gene cross-reference

ath:AT1G29170

ath:AT2G34150

ath:AT4G18600

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.

Cytoplasm0.488

Rank 1 · LXL04_027339 · OH-1004

Cell membrane0.283

Rank 2 · LXL04_027339 · OH-1004

Nucleus0.247

Rank 3 · LXL04_027339 · OH-1004

Golgi apparatus0.085

Rank 4 · LXL04_027339 · OH-1004

Endoplasmic reticulum0.069

Rank 5 · LXL04_027339 · 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.

PF27569.2SCAR_helical3-191 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_027339	`PF27569.2`	SCAR_helical	3	191	4.2e-70	236.0

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
`Q9LP46`	Arabidopsis thaliana	Protein SCAR3	34.011%	Swiss-Prot	moderate database homology
`Q6AWX6`	Arabidopsis thaliana	Protein SCAR1	37.251%	Swiss-Prot	moderate database homology
`Q5XPK0`	Arabidopsis thaliana	Scar-like domain-containing protein WAVE 5	56.808%	Swiss-Prot	weak database homology
`Q5XPJ9`	Arabidopsis thaliana	Protein SCAR2	52.113%	Swiss-Prot	weak database homology
`Q5QNA6`	Oryza sativa subsp. japonica	SCAR-like protein 2	54.464%	Swiss-Prot	weak database homology

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