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Aliases for LRIT2 Gene

Aliases for LRIT2 Gene

  • Leucine Rich Repeat, Ig-Like And Transmembrane Domains 2 2 3 5
  • Leucine-Rich Repeat-Containing Protein 22 3 4
  • Leucine Rich Repeat Containing 22 2 3
  • LRRC22 3 4
  • Leucine-Rich Repeat, Immunoglobulin-Like Domain And Transmembrane Domain-Containing Protein 2 3
  • Leucine-Rich Repeat, Immunoglobulin-Like And Transmembrane Domains 2 3

External Ids for LRIT2 Gene

Previous HGNC Symbols for LRIT2 Gene

  • LRRC22

Previous GeneCards Identifiers for LRIT2 Gene

  • GC10M085830
  • GC10M085971
  • GC10M079826

Summaries for LRIT2 Gene

GeneCards Summary for LRIT2 Gene

LRIT2 (Leucine Rich Repeat, Ig-Like And Transmembrane Domains 2) is a Protein Coding gene. An important paralog of this gene is LRIT1.

Additional gene information for LRIT2 Gene

No data available for Entrez Gene Summary , CIViC summary , UniProtKB/Swiss-Prot , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for LRIT2 Gene

Genomics for LRIT2 Gene

GeneHancer (GH) Regulatory Elements for LRIT2 Gene

Promoters and enhancers for LRIT2 Gene
GeneHancer (GH) Identifier GH Type GH
Score
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH10I084225 Promoter 0.5 EPDnew 561.6 +0.0 26 0.1 LRIT2 PIR57101
GH10I084176 Enhancer 1.5 FANTOM5 Ensembl ENCODE dbSUPER 11.2 +47.5 47546 4 HDAC1 HDGF PKNOX1 YBX1 BMI1 ZNF280A ZNF207 ATF7 FOS IKZF2 LRIT2 CDHR1 CCSER2 GC10P084182 C10orf99
GH10I084200 Enhancer 0.9 ENCODE dbSUPER 15.5 +24.3 24257 1.1 CTCF TAL1 EBF1 RAD21 TCF12 CTBP1 VEZF1 SIRT6 CBFA2T2 TRIM24 LRIT2 GHITM CDHR1 PIR57101 GC10P084182
GH10I084156 Enhancer 1 Ensembl ENCODE 11.1 +68.6 68561 0.8 CTCF HDAC1 MEIS2 PKNOX1 ETV1 JUN MAX CEBPG ZIC2 FOSL1 CDHR1 LRIT2 RNU1-65P ENSG00000271933 C10orf99 CERNA2
GH10I084244 Promoter/Enhancer 1.1 EPDnew ENCODE 9.5 -19.3 -19289 1.3 SOX13 HLF ARID4B CEBPB CEBPG ZNF644 TEAD3 NFIL3 CEBPA HNF4A RGR LRIT1 LRIT2 GC10M084241
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data dump

GeneHancers around LRIT2 on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the LRIT2 gene promoter:

Genomic Locations for LRIT2 Gene

Genomic Locations for LRIT2 Gene
chr10:84,220,485-84,225,589
(GRCh38/hg38)
Size:
5,105 bases
Orientation:
Minus strand
chr10:85,980,241-85,985,345
(GRCh37/hg19)

Genomic View for LRIT2 Gene

Genes around LRIT2 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
LRIT2 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for LRIT2 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for LRIT2 Gene

Proteins for LRIT2 Gene

  • Protein details for LRIT2 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    A6NDA9-LRIT2_HUMAN
    Recommended name:
    Leucine-rich repeat, immunoglobulin-like domain and transmembrane domain-containing protein 2
    Protein Accession:
    A6NDA9
    Secondary Accessions:
    • B7ZME6

    Protein attributes for LRIT2 Gene

    Size:
    550 amino acids
    Molecular mass:
    60168 Da
    Quaternary structure:
    No Data Available

    Alternative splice isoforms for LRIT2 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for LRIT2 Gene

Post-translational modifications for LRIT2 Gene

  • Glycosylation at posLast=5252
  • Modification sites at PhosphoSitePlus

Other Protein References for LRIT2 Gene

ENSEMBL proteins:
REFSEQ proteins:

No data available for DME Specific Peptides for LRIT2 Gene

Domains & Families for LRIT2 Gene

Gene Families for LRIT2 Gene

HGNC:
Human Protein Atlas (HPA):
  • Predicted membrane proteins

Suggested Antigen Peptide Sequences for LRIT2 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

genes like me logo Genes that share domains with LRIT2: view

No data available for UniProtKB/Swiss-Prot for LRIT2 Gene

Function for LRIT2 Gene

Phenotypes for LRIT2 Gene

genes like me logo Genes that share phenotypes with LRIT2: view

Animal Model Products

Clone Products

No data available for Molecular function , Enzyme Numbers (IUBMB) , Phenotypes From GWAS Catalog , Gene Ontology (GO) - Molecular Function , Human Phenotype Ontology , Animal Models , miRNA , Transcription Factor Targets and HOMER Transcription for LRIT2 Gene

Localization for LRIT2 Gene

Subcellular locations from UniProtKB/Swiss-Prot for LRIT2 Gene

Membrane; Single-pass type I membrane protein.

Subcellular locations from

COMPARTMENTS
Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for LRIT2 gene
Compartment Confidence
plasma membrane 3
extracellular 3
endoplasmic reticulum 1
lysosome 1

Gene Ontology (GO) - Cellular Components for LRIT2 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0016021 integral component of membrane IEA --
genes like me logo Genes that share ontologies with LRIT2: view

No data available for Subcellular locations from the Human Protein Atlas (HPA) for LRIT2 Gene

Pathways & Interactions for LRIT2 Gene

SuperPathways for LRIT2 Gene

No Data Available

Interacting Proteins for LRIT2 Gene

Gene Ontology (GO) - Biological Process for LRIT2 Gene

None

No data available for Pathways by source and SIGNOR curated interactions for LRIT2 Gene

Drugs & Compounds for LRIT2 Gene

No Compound Related Data Available

Transcripts for LRIT2 Gene

mRNA/cDNA for LRIT2 Gene

(2) REFSEQ mRNAs :
(3) Additional mRNA sequences :
(5) Selected AceView cDNA sequences:
(2) Ensembl transcripts including schematic representations, and UCSC links where relevant :

Unigene Clusters for LRIT2 Gene

Leucine-rich repeat, immunoglobulin-like and transmembrane domains 2:
Representative Sequences:

Clone Products

Alternative Splicing Database (ASD) splice patterns (SP) for LRIT2 Gene

No ASD Table

Relevant External Links for LRIT2 Gene

GeneLoc Exon Structure for
LRIT2
ECgene alternative splicing isoforms for
LRIT2

Expression for LRIT2 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for LRIT2 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for LRIT2 Gene

This gene is overexpressed in Skin - Not Sun Exposed (Suprapubic) (x9.6), Skin - Sun Exposed (Lower leg) (x8.2), Colon - Transverse (x6.0), Brain - Nucleus accumbens (basal ganglia) (x5.7), Brain - Caudate (basal ganglia) (x4.9), and Brain - Putamen (basal ganglia) (x4.8).

Protein differential expression in normal tissues from HIPED for LRIT2 Gene

This gene is overexpressed in Retina (69.0).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, and MOPED for LRIT2 Gene



Protein tissue co-expression partners for LRIT2 Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of LRIT2 Gene:

LRIT2

SOURCE GeneReport for Unigene cluster for LRIT2 Gene:

Hs.450425

Evidence on tissue expression from TISSUES for LRIT2 Gene

  • Eye(4.2)
genes like me logo Genes that share expression patterns with LRIT2: view

No data available for mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer for LRIT2 Gene

Orthologs for LRIT2 Gene

This gene was present in the common ancestor of chordates.

Orthologs for LRIT2 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia LRIT2 33 34
  • 98.99 (n)
cow
(Bos Taurus)
Mammalia LRIT2 33 34
  • 83.03 (n)
mouse
(Mus musculus)
Mammalia Lrit2 33 16 34
  • 78.97 (n)
dog
(Canis familiaris)
Mammalia LRIT2 33 34
  • 78.28 (n)
rat
(Rattus norvegicus)
Mammalia Lrit2 33
  • 77.9 (n)
oppossum
(Monodelphis domestica)
Mammalia LRIT2 34
  • 54 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia LRIT2 34
  • 44 (a)
OneToOne
chicken
(Gallus gallus)
Aves LRIT2 33 34
  • 60.52 (n)
lizard
(Anolis carolinensis)
Reptilia LRIT2 34
  • 46 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia lrit2 33
  • 56.53 (n)
zebrafish
(Danio rerio)
Actinopterygii lrit2 33 34
  • 56.34 (n)
Species where no ortholog for LRIT2 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • baker's yeast (Saccharomyces cerevisiae)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • fruit fly (Drosophila melanogaster)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rainbow trout (Oncorhynchus mykiss)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea squirt (Ciona intestinalis)
  • sea squirt (Ciona savignyi)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)
  • worm (Caenorhabditis elegans)

Evolution for LRIT2 Gene

ENSEMBL:
Gene Tree for LRIT2 (if available)
TreeFam:
Gene Tree for LRIT2 (if available)

Paralogs for LRIT2 Gene

Paralogs for LRIT2 Gene

(2) SIMAP similar genes for LRIT2 Gene using alignment to 2 proteins:

genes like me logo Genes that share paralogs with LRIT2: view

Variants for LRIT2 Gene

Sequence variations from dbSNP and Humsavar for LRIT2 Gene

SNP ID Clin Chr 10 pos Variation AA Info Type
rs1000886636 -- 84,225,193(-) C/T intron_variant
rs1002289139 -- 84,223,780(-) T/C intron_variant
rs1003074095 -- 84,227,448(-) G/T upstream_transcript_variant
rs1003365516 -- 84,221,811(-) A/G 3_prime_UTR_variant
rs1003613263 -- 84,226,827(-) GGGGGG/GGGGGGG upstream_transcript_variant

Structural Variations from Database of Genomic Variants (DGV) for LRIT2 Gene

Variant ID Type Subtype PubMed ID
esv3306025 CNV mobile element insertion 20981092
esv3330878 CNV insertion 20981092
nsv1046749 CNV gain 25217958
nsv1141879 OTHER inversion 24896259
nsv551745 CNV gain 21841781

Variation tolerance for LRIT2 Gene

Residual Variation Intolerance Score: 80.6% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 8.95; 87.26% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for LRIT2 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
LRIT2

SNP Genotyping and Copy Number Assay Products

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for LRIT2 Gene

Disorders for LRIT2 Gene

Additional Disease Information for LRIT2

Genetic Association Database
(GAD)
Human Genome Epidemiology Navigator
(HuGE)
ATLAS of Genetics and Cytogenetics in Oncology and Haematology

No disorders were found for LRIT2 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for LRIT2 Gene

Publications for LRIT2 Gene

  1. Personalized smoking cessation: interactions between nicotine dose, dependence and quit-success genotype score. (PMID: 20379614) Rose JE … Uhl GR (Molecular medicine (Cambridge, Mass.) 2010) 3 44 58
  2. New genetic associations detected in a host response study to hepatitis B vaccine. (PMID: 20237496) Davila S … Seielstad M (Genes and immunity 2010) 3 58
  3. The full-ORF clone resource of the German cDNA Consortium. (PMID: 17974005) Bechtel S … Schupp I (BMC genomics 2007) 4 58
  4. The DNA sequence and comparative analysis of human chromosome 10. (PMID: 15164054) Deloukas P … Rogers J (Nature 2004) 4 58
  5. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PMID: 15489334) Gerhard DS … MGC Project Team (Genome research 2004) 4 58

Products for LRIT2 Gene

Sources for LRIT2 Gene

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