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Gene Card

Enter a TK1151 or OH-1004 gene ID to view sequences, annotations and analyses in the corresponding reference genome.
Flanking length, max 10000 bp
Examples TkA01G624900 LXL04_000258

Gene overview

LXL04_003484
Reference: OH-1004 Chr: Chr01 Coordinates: 80933817-80939956 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

Download cDNA FASTA

3004 bp · LXL04_003484|LXL04_003484|OH1004|cDNA

ATGTATCCTTTATTTTCCAAAACTTTTAAGGGGTCAAGAGTTTTTAAAAGGTGCAACGGGCCTGATGGCTTCCCATGTCTTGATGCTCTTCATCTCGTTTTTCATTCTAGACTCTCCTCACATTTTTTAAATGCGAAATCTGGATTGAGAAAGATGCAGTTAAGAACAAGTGGTGCAGCAGATGGTTTCAGAATCAGCGTTTCCAGCACCCCTAGTTGTTCAAATCCTAATTCTGGACACGATGACATCGAATCATTAGG...

CDS

Download CDS FASTA

2997 bp · LXL04_003484|LXL04_003484|OH1004|CDS

ATGTATCCTTTATTTTCCAAAACTTTTAAGGGGTCAAGAGTTTTTAAAAGGTGCAACGGGCCTGATGGCTTCCCATGTCTTGATGCTCTTCATCTCGTTTTTCATTCTAGACTCTCCTCACATTTTTTAAATGCGAAATCTGGATTGAGAAAGATGCAGTTAAGAACAAGTGGTGCAGCAGATGGTTTCAGAATCAGCGTTTCCAGCACCCCTAGTTGTTCAAATCCTAATTCTGGACACGATGACATCGAATCATTAGG...

Protein

Download Protein FASTA

998 aa · LXL04_003484|LXL04_003484|OH1004|PROTEIN

MYPLFSKTFKGSRVFKRCNGPDGFPCLDALHLVFHSRLSSHFLNAKSGLRKMQLRTSGAADGFRISVSSTPSCSNPNSGHDDIESLGDVFVWGEVWSDVSSSDGSTNTFQLKNDVTIPRLLECNVVIDVQQIACGVRHLSLVTKQGEVFTWGEESGGRLGHGTEKDFSRPHLVEFLAVTNVDYVACGEFHTCAITNAGDLYTWGDGSHNAGLLGHGTDCSHWIPKRVSGPLEGLLVFSVACSTWHTALSTVDGRLFTFGD...

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.

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ID Mapping

Input IDLXL04_003484
Source versionOH-1004 / GCA_047496595.1_OSU_TarKok_2.0
Open Full ID Mapping
SNP / Indel variants and carrier samplesCRA009020 · OH-1004

Expand to load variant records for this gene.

Basic Information and Functional Annotation

Gene IDLXL04_003484
LocationChr01:80933817-80939956 (-)
DescriptionSimilar to PRAF1: PH, RCC1 and FYVE domains-containing protein 1
Arabidopsis / Rice Reference Genes and Papers

Download references for this gene

Arabidopsis

Reference gene IDPossible functionPapers / DOI
At1g76950 Binds to phosphatidic acid and to phosphoinositides such as PtdIns3P, PtdIns(3,4)P(2), PtdIns(3,4,5)P(3) and PtdIns(4,5)P(2). 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_003484 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)
GO:0010374 stomatal complex development Biological Process
GO:0016567 protein ubiquitination Biological Process
GO:0005737 cytoplasm Cellular Component
GO:0005794 Golgi apparatus Cellular Component
GO:0005829 cytosol Cellular Component
GO:0005886 plasma membrane Cellular Component
GO:0016020 membrane Cellular Component
GO:0005085 guanyl-nucleotide exchange factor activity Molecular Function
GO:0008270 zinc ion binding Molecular Function
GO:0035091 phosphatidylinositol binding Molecular Function
GO:0061630 ubiquitin protein ligase activity Molecular Function
GO:0070300 phosphatidic acid binding Molecular Function
KEGG gene cross-reference
ath:AT1G76950
hsa:8925
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.

Cytoplasm0.450
Rank 1 · LXL04_003484 · OH-1004
Nucleus0.283
Rank 2 · LXL04_003484 · OH-1004
Cell membrane0.206
Rank 3 · LXL04_003484 · OH-1004
Golgi apparatus0.106
Rank 4 · LXL04_003484 · OH-1004
Endoplasmic reticulum0.078
Rank 5 · LXL04_003484 · 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.

PF25390.2WD40_RLD106-465 aa
PF00415.25RCC1145-194 aa
PF13540.13RCC1_2183-208 aa
PF00415.25RCC1198-247 aa
PF00415.25RCC1252-301 aa
PF00415.25RCC1317-363 aa
PF13540.13RCC1_2351-379 aa
PF00415.25RCC1366-415 aa
Gene IDDomain IDDomain NameStart aaEnd aaE-valueScore
LXL04_003484PF25390.2WD40_RLD1064651e-76259.4
LXL04_003484PF00415.25RCC11451947.8e-78257.6
LXL04_003484PF13540.13RCC1_21832082.9e-30104.0
LXL04_003484PF00415.25RCC11982477.8e-78257.6
LXL04_003484PF00415.25RCC12523017.8e-78257.6
LXL04_003484PF00415.25RCC13173637.8e-78257.6
LXL04_003484PF13540.13RCC1_23513792.9e-30104.0
LXL04_003484PF00415.25RCC13664157.8e-78257.6
LXL04_003484PF13540.13RCC1_24034302.9e-30104.0
LXL04_003484PF00415.25RCC14204667.8e-78257.6
LXL04_003484PF01363.28FYVE4715371.6e-1557.6
LXL04_003484PF08381.17BRX9449684.2e-0730.0

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

ProteinOrganismDescriptionIdentityDatabaseConfidence
Q947D2Arabidopsis thalianaPH, RCC1 and FYVE domains-containing protein 155.021%Swiss-Protstrong database homology

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