LXL04_020980 | RubberDandelionOmics

Gene overview

LXL04_020980

Reference: OH-1004 Chr: Chr04 Coordinates: 117164622-117171874 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

3660 bp · LXL04_020980|LXL04_020980|OH1004|cDNA

ATGAAGGGGTGGAGAGAGGCATCCGGATCAAGACAAAGCAGCGATAGTGTATCCTCCGGTACGCCGCTGGTTATTGATAGGAATCTCTCGTCGAGCACCATCCGACTTGGTCGAGTTCAACCCCAGGCGCCAGGTCATCGCACTGTTTTCTGCAACGATCGCGAAGCCAACCAACTTGCGAAGTACAAGGGAAATTCCGTATCAACAACAAAATACAACGTTGCTACCTTTTTACCAAAGGGGCTCTATGAGCAGTTTAG...

CDS

Download CDS FASTA

3660 bp · LXL04_020980|LXL04_020980|OH1004|CDS

ATGAAGGGGTGGAGAGAGGCATCCGGATCAAGACAAAGCAGCGATAGTGTATCCTCCGGTACGCCGCTGGTTATTGATAGGAATCTCTCGTCGAGCACCATCCGACTTGGTCGAGTTCAACCCCAGGCGCCAGGTCATCGCACTGTTTTCTGCAACGATCGCGAAGCCAACCAACTTGCGAAGTACAAGGGAAATTCCGTATCAACAACAAAATACAACGTTGCTACCTTTTTACCAAAGGGGCTCTATGAGCAGTTTAG...

Protein

Download Protein FASTA

1219 aa · LXL04_020980|LXL04_020980|OH1004|PROTEIN

MKGWREASGSRQSSDSVSSGTPLVIDRNLSSSTIRLGRVQPQAPGHRTVFCNDREANQLAKYKGNSVSTTKYNVATFLPKGLYEQFRRVANLYFLTISCLSFTPVSPVSPITNVIPLSLVLFVSLVKEAFEDWKRLQNDMTINNSSVEVLQDQRWEATPWKKLQVGDIVRVRQDTFFPADLLLLASTNPDGICYTETANLDGETNLKIRKALEKTWDYVTPEKASEFKGEIHCEQPNNSLYTFTGNLLLQKQTIPIGPNQ...

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_020980`
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_020980

Location Chr04:117164622-117171874 (-)

Description Similar to ALA3: Phospholipid-transporting ATPase 3

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At1g59820`	Involved in transport of phospholipids.	The Arabidopsis P4-ATPase ALA3 localizes to the golgi and requires a beta-subunit to function in lipid translocation and secretory vesicle formation.2008 · DOI: 10.1105/tpc.107.054767 IRREGULAR TRICHOME BRANCH 2 (ITB2) encodes a putative aminophospholipid translocase that regulates trichome branch elongation in Arabidopsis.2009 · DOI: 10.1111/j.1365-313x.2009.03954.x Intracellular targeting signals and lipid specificity determinants of the ALA/ALIS P4-ATPase complex reside in the catalytic ALA alpha-subunit.2010 · DOI: 10.1091/mbc.e09-08-0656 Loss of the Arabidopsis thaliana P₄-ATPase ALA3 reduces adaptability to temperature stresses and impairs vegetative, pollen, and ovule development.2013 · DOI: 10.1371/journal.pone.0062577 An Arabidopsis Lipid Flippase Is Required for Timely Recruitment of Defenses to the Host-Pathogen Interface at the Plant Cell Surface.2017 · DOI: 10.1016/j.molp.2017.04.003
`At1g68710`	Involved in transport of phospholipids.	No verified direct reference in this release
`At3g25610`	Involved in transport of phospholipids.	No verified direct reference in this release
`At1g13210`	Involved in transport of phospholipids.	No verified direct reference in this release
`At3g27870`	Involved in transport of phospholipids.	No verified direct reference in this release

Rice

No hit for this species in the current source table.

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_020980 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0002237 response to molecule of bacterial origin Biological Process

GO:0002238 response to molecule of fungal origin Biological Process

GO:0006893 Golgi to plasma membrane transport Biological Process

GO:0008104 intracellular protein localization Biological Process

GO:0009860 pollen tube growth Biological Process

GO:0010183 pollen tube guidance Biological Process

GO:0015031 protein transport Biological Process

GO:0016192 vesicle-mediated transport Biological Process

GO:0042742 defense response to bacterium Biological Process

GO:0045332 phospholipid translocation Biological Process

GO:0048194 Golgi vesicle budding Biological Process

GO:0048364 root development Biological Process

KEGG gene cross-reference

ath:AT1G13210

ath:AT1G59820

ath:AT1G68710

ath:AT3G25610

ath:AT3G27870

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.

Cell membrane0.454

Rank 1 · LXL04_020980 · OH-1004

Endoplasmic reticulum0.264

Rank 2 · LXL04_020980 · OH-1004

Cytoplasm0.227

Rank 3 · LXL04_020980 · OH-1004

Golgi apparatus0.194

Rank 4 · LXL04_020980 · OH-1004

Lysosome / Vacuole0.123

Rank 5 · LXL04_020980 · 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.

PF16209.11PhoLip_ATPase_N49-113 aa

PF13246.13Cation_ATPase505-703 aa

PF00702.33Hydrolase662-753 aa

PF16212.12PhoLip_ATPase_C886-1132 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_020980	`PF16209.11`	PhoLip_ATPase_N	49	113	5.2e-26	90.9
LXL04_020980	`PF13246.13`	Cation_ATPase	505	703	1.1e-24	87.9
LXL04_020980	`PF00702.33`	Hydrolase	662	753	4e-08	34.6
LXL04_020980	`PF16212.12`	PhoLip_ATPase_C	886	1132	2.9e-79	267.1

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.

Download current result

Protein	Organism	Description	Identity	Database	Confidence
`Q9XIE6`	Arabidopsis thaliana	Phospholipid-transporting ATPase 3	73.658%	Swiss-Prot	strong database homology
`Q9SX33`	Arabidopsis thaliana	Putative phospholipid-transporting ATPase 9	46.714%	Swiss-Prot	moderate database homology
`Q9LI83`	Arabidopsis thaliana	Phospholipid-transporting ATPase 10	46.479%	Swiss-Prot	moderate database homology
`Q9SAF5`	Arabidopsis thaliana	Probable phospholipid-transporting ATPase 11	46.262%	Swiss-Prot	moderate database homology
`Q9LK90`	Arabidopsis thaliana	Probable phospholipid-transporting ATPase 8	46.085%	Swiss-Prot	moderate database homology

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