SLITRK1 Gene

Aliases
for SLITRK1 gene

(According to ¹HGNC, ²Entrez Gene,
³UniProtKB/Swiss-Prot, ⁴UniProtKB/TrEMBL, ⁵OMIM, ⁶GeneLoc, ⁷Ensembl, ⁸DME, ⁹miRBase, ¹⁰fRNAdb, ¹²H-InvDB, ¹³NCBI, ¹⁴NONCODE, and/or ¹⁵RNAdb)
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Previous GC identifers: GC13M082251 GC13M082249 GC13M083349 GC13M065151

Summaries
for SLITRK1 gene

(According to Entrez Gene, GeneCards, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
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Genomic Views
for SLITRK1 gene

(According to GeneLoc and/or HGNC, and/or
Entrez Gene (NCBI build 37),
and/or miRBase,
Genomic Views according to UCSC (hg19) and Ensembl (release 75), Regulatory elements and Epigenetics data according to QIAGEN, and/or SwitchGear Genomics)
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RefSeq DNA sequence at NCBI GenBank:

NC_000013.10  NC_018924.2  NT_024524.15  

SwitchGear Promoter luciferase reporter plasmid: SLITRK1 promoter sequence

DNA Methylation CpG Assay Predesigned for Pyrosequencing in human, mouse, rat SLITRK1

SLITRK1 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)


GeneLoc information about chromosome 13         GeneLoc Exon Structure

GeneLoc location for GC13M084451:  view genomic region     (about GC identifiers)

Proteins
for SLITRK1 gene

(According to ¹UniProtKB, HORDE, ²neXtProt, Ensembl, and/or Reactome, Modification sites according to PhosphoSitePlus, Specific Peptides from DME, RefSeq according to NCBI, PDB rendering according to OCA and/or Proteopedia, Recombinant Proteins from EMD Millipore, R&D Systems, GenScript, Enzo Life Sciences, OriGene, Novus Biologicals, Sino Biological, ProSpec, Cloud-Clone Corp., eBioscience, antibodies-online, and/or GeneTex,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, Cloud-Clone Corp., eBioscience, and/or antibodies-online, Antibodies by EMD Millipore, R&D Systems, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, Abcam, Cloud-Clone Corp, antibodies-online, and/or others.)
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Explore the universe of human proteins at neXtProt for SLITRK1: NX_Q96PX8

Explore proteomics data for SLITRK1 at MOPED

Post-translational modifications: 

SLITRK1 Human Recombinant Protein Products:

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	antibodies-online peptides for SLITRK1

SLITRK1 Antibody Products:

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SLITRK1 Assay Products:

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Domains /
Families
for SLITRK1 gene

(According to HGNC, IUPHAR, InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GenesLikeMe)
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ProtoNet protein and cluster: Q96PX8

Find genes that share domains with SLITRK1           About GenesLikeMe

Function
for SLITRK1 gene

(According to ¹UniProtKB, Genatlas, LifeMap Discovery™, IUBMB, and/or ²DME, Human phenotypes from GenomeRNAi, Animal models from MGI Mar 06 2013, genOway,
transcription factor targeting from QIAGEN and/or HOMER, miRNA Gene Targets from miRTarBase, shRNA from OriGene, siRNAs from OriGene, QIAGEN, microRNA from QIAGEN, SwitchGear Genomics, Gene Editing from DNA2.0, Clones from OriGene, GenScript, Sino Biological, DNA2.0, Vector BioLabs and/or Addgene, Cell Lines from GenScript, ESI BIO, In Situ Hybridization Assays from Advanced Cell Diagnostics, Flow cytometry from eBioscience, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene, Sets of similar genes according to GenesLikeMe)
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     Gene Ontology (GO): 1 molecular function term:    About this table

(inferred from 2 alleles) (MGI details for Slitrk1)

genOway: Develop your customized and physiologically relevant rodent model for SLITRK1

miRNA Products:		miRTarBase miRNAs that target SLITRK1: hsa-mir-24-1-5p (MIRT005653), hsa-mir-335-5p (MIRT018680)
		Block miRNA regulation of human, mouse, rat SLITRK1 using miScript Target Protectors
		Selected qRT-PCR Assays for microRNAs that regulate SLITRK1 (see all 35):
		hsa-miR-4291 hsa-miR-429 hsa-miR-517a hsa-miR-517c hsa-miR-4275 hsa-miR-570 hsa-miR-532-5p hsa-miR-3148
		SwitchGear 3'UTR luciferase reporter plasmid: SLITRK1 3' UTR sequence

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		Predesigned siRNA for gene silencing in human, mouse, rat SLITRK1

Gene Editing Products:

DNA2.0 Custom Protein Engineering Service for SLITRK1

Clone Products:		OriGene clones in human, mouse for SLITRK1 (see all 6) OriGene ORF clones in mouse, rat for SLITRK1 OriGene custom cloning services - gene synthesis, subcloning, mutagenesis, variant library, vector shuttling
		GenScript: all cDNA clones in your preferred vector: SLITRK1 (NM_052910)
		Sino Biological Human cDNA Clone for SLITRK1
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Cell Line Products:		GenScript Custom overexpressing Cell Line Services for SLITRK1
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In Situ Assay Products:

Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for SLITRK1

Localization
for SLITRK1 gene

(According to UniProtKB, COMPARTMENTS Subcellular localization database, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene, Sets of similar genes according to GenesLikeMe)
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Subcellular locations from COMPARTMENTS: 

Compartment	Confidence
plasma membrane	3
cytosol	1
endoplasmic reticulum	1
extracellular	1
golgi apparatus	1
nucleus	1

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Gene Ontology (GO): 1 cellular component term:    About this table

Pathways & Interactions
for SLITRK1 gene

(SuperPaths according to PathCards, Pathways according to R&D Systems, Cell Signaling Technology, KEGG, PharmGKB, BioSystems, Sino Biological, Reactome, Tocris Bioscience, GeneGo (Thomson Reuters), QIAGEN, and/or UniProtKB, Sets of similar genes according to GenesLikeMe, Interaction Networks according to QIAGEN, and/or STRING, Interactions according to ¹UniProtKB, ²MINT, ³I2D, and/or ⁴STRING, with links to IntAct and Ensembl, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene, Sets of similar genes according to GenesLikeMe)
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Gene Ontology (GO): 5 biological process terms:    About this table

Drugs & Compounds
for SLITRK1 gene

(Chemical Compounds according to UniProtKB, Enzo Life Sciences, EMD Millipore, Tocris Bioscience, ApexBio, HMDB, BitterDB, and/or Novoseek, Ligands according to IUPHAR, and Drugs according to DrugBank, Enzo Life Sciences, and/or PharmGKB, Sets of similar genes according to GenesLikeMe)
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Transcripts
for SLITRK1 gene

(Secondary structures according to fRNAdb,
GenBank/EMBL/DDBJ Accessions according to
Unigene (Build 236 Homo sapiens; Apr 25 2013) or GenBank,
RefSeq according to Entrez Gene,
DOTS (version 10), and/or AceView, transcript ids from Ensembl with links to UCSC,
exon structure from GeneLoc, alternative splicing isoforms according to ASD and/or ECgene,
siRNAs from OriGene, QIAGEN, shRNA from OriGene, microRNA from QIAGEN, SwitchGear Genomics,
Tagged/untagged cDNA clones from OriGene, GenScript, DNA2.0, Vector BioLabs, and/or Addgene, Primers from OriGene, and/or QIAGEN, Flow cytometry from eBioscience )
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Expression
for SLITRK1 gene

(RNA expression data according to H-InvDB, NONCODE, miRBase, and RNAdb, Expression images according to data from BioGPS, Illumina Human BodyMap, and CGAP SAGE, Sets of similar genes according to GenesLikeMe, in vivo and in vitro expression data from LifeMap Discovery™, Protein expression images according to data from SPIRE ¹MOPED, ²PaxDb, and ³MaxQB, plus additional links to SOURCE, and/or BioGPS, and/or UniProtKB,
PCR Arrays from QIAGEN, Primers from OriGene, and/or QIAGEN, In Situ Hybridization Assays from Advanced Cell Diagnostics)
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SLITRK1 expression in normal human tissues (normalized intensities)
See probesets specificity/sensitivity at GeneAnnot
About this imageBioGPS <intensity>^2/3
CGAP TAG: ACCAATTAAT

About this image

Brain (Nervous System)    fully expand to see all 3 entries
Cerebral Cortex
Bone (Muscoskeletal System)    fully expand to see all 2 entries
HyStem+BMP4-induced SK11 cells
Cartilage (Muscoskeletal System)    fully expand to see all 2 entries
HyStem+BMP4-induced SM30 cells
Ovary (Reproductive System)
Oviduct
Adipose (Muscoskeletal System)
HyStem+BMP4-induced SM30 cells

Primer Products:		OriGene qPCR primer pairs and template standards for SLITRK1 OriGene qSTAR qPCR primer pairs in human, mouse for SLITRK1
		Pre-validated RT2 qPCR Primer Assay in human, mouse, rat SLITRK1
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		QuantiFast Probe-based Assays in human, mouse, rat SLITRK1

In Situ Assay Products:

Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for SLITRK1

Orthologs
for SLITRK1 gene

(Orthologs according to ^1,2HomoloGene (²older version, for species not in ¹newer version), ³euGenes, ⁴SGD , ⁵MGI Mar 06 2013, with possible further links to Flybase and/or WormBase, and/or ⁶Ensembl pan taxonomic compara , Gene Trees according to Ensembl and TreeFam)
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Paralogs
for SLITRK1 gene

(Paralogs according to ¹HomoloGene,
²Ensembl, and ³SIMAP, Pseudogenes according to ⁴Pseudogene.org Build 68,Sets of similar genes according to GenesLikeMe)
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Paralogs for SLITRK1 gene

SLITRK5²  ISLR²  SLIT1²  SLIT3²  SLITRK6²  LRRC38²  SLIT2²  LRRC26²  

SLITRK4²  LRTM1²  LRRC52²  LRRC17²  SLITRK2²  LRTM2²  SLITRK3²  LRRC55²  

ISLR2²  LRRC24²  

6 SIMAP similar genes for SLITRK1 using alignment to 1 protein entry:     SLIK1_HUMAN:

DKFZp451E1911    SLITRK2    SLITRK4    SLITRK3    SLITRK5    SLITRK6

Find genes that share paralogs with SLITRK1           About GenesLikeMe

Genomic Variants
for SLITRK1 gene

(SNPs/Variants according to the ¹NCBI SNP Database, ²Ensembl, ³PupaSUITE, ⁴UniProtKB, and DNA2.0, Linkage Disequilibrium by HapMap, Structural Variations(CNVs/InDels/Inversions) from the Database of Genomic Variants, Mutations from the Human Gene Mutation Database (HGMD), the Human Cytochrome P450 Allele Nomenclature Database, and the Locus Specific Mutation Databases (LSDB), Blood group antigen gene mutations by BGMUT, Resequencing Primers, Cancer Mutation PCR Arrays and Assays, and Copy Number PCR Arrays from QIAGEN)
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Selected SNPs for SLITRK1 (see all 166)    About this table

Genomic Data					Transcription Related Data				Allele Frequencies
SNP ID	Valid	Clinical significance	Chr 13 pos	Sequence	#	AA Chg	Type	More	#	Allele freq	Pop	Total sample	More
-1st2nd3rd	-1st2nd3rd	-1st2nd3rd	-1st2nd3rd	--	--	--	-1st2nd3rd	--	--	-1st2nd3rd	-1st2nd3rd	-1st2nd3rd
rs1912844031,2	C	pathogenic1	65351172(+)	CCTACC/TGATCA	1	--	ut31		0	--	--	--	--
rs1860011001,2		--	65349212(+)	TTTTCA/CATTAA	1	--	ds5001		0	--	--	--	--
rs170774051,2	C,F,H	--	65349254(+)	CTTCTA/GTGAGA	1	--	ds5001		10		NA NS CSA WA	1052
rs1889007731,2		--	65349335(+)	TGCCAA/TTAAAT	1	--	ds5001		0	--	--	--	--
rs415617121,2	C,F	--	65349344(-)	GAAGGT/CGACAT	1	--	ds5001		6		EU NA EA	426
rs1485831481,2		--	65349395(+)	CTTTCC/TAAAGG	1	--	ds5001		0	--	--	--	--
rs1455900891,2		--	65349487(+)	AGTTGC/TACTTT	1	--	ds5001		0	--	--	--	--
rs1477134521,2		--	65349630(+)	AATGAC/TGAATG	1	--	ds5001		0	--	--	--	--
rs1820276441,2		--	65349774(+)	CTTACA/GACTGC	1	--	ut31		0	--	--	--	--
rs1860690291,2	C	--	65349786(+)	CTGAGA/GTCTTT	1	--	ut31		0	--	--	--	--

HapMap Linkage Disequilibrium report for SLITRK1 (84451343 - 84456528 bp)

Structural Variations
      Database of Genomic Variants (DGV) variations for SLITRK1: --
Human Gene Mutation Database (HGMD): SLITRK1

Site Specific Mutation Identification with PCR Assays

SeqTarget long-range PCR primers for resequencing SLITRK1

DNA2.0 Custom Variant and Variant Library Synthesis for SLITRK1

Disorders / Diseases
for SLITRK1 gene

(in which this Gene is Involved, According to MalaCards, OMIM, UniProtKB, the University of Copenhagen DISEASES database, Genatlas, GeneTests, GAD, HuGE Navigator, and/or TGDB, Sets of similar genes according to GenesLikeMe)
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Publications
for SLITRK1 gene

(in PubMed. Associations of this gene to articles via ¹Entrez Gene, ²UniProtKB/Swiss-Prot, ³HGNC, ⁴GAD, ⁵PharmGKB, ⁶HMDB, ⁷DrugBank, ⁸UniProtKB/TrEMBL, ⁹ Novoseek, and/or ¹⁰fRNAdb)
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1. Human SLITRK family genes: genomic organization and expression profiling in normal brain and brain tumor tissue. (PubMed id 14557068)^{1, 2, 3, 9} Aruga J.... Mikoshiba K. (Gene 2003)
2. Sequence variants in SLITRK1 are associated with Tourette's syndrome. (PubMed id 16224024)^{1, 2, 4} Abelson J.F.... State M.W. (Science 2005)
3. The secreted protein discovery initiative (SPDI), a large-scale effort to identify novel human secreted and transmembrane proteins: a bioinformatics assessment. (PubMed id 12975309)^{1, 2, 3} Clark H.F.... Gray A.M. (Genome Res. 2003)
4. Coeliac disease-associated risk variants in TNFAIP3 and REL implicate altered NF-kappaB signalling. (PubMed id 19240061)^{1, 4} Trynka G....Wijmenga C. (Gut 2009)
5. Association study between Gilles de la Tourette Syndrome and two genes in the Robo-Slit pathway located in the chromosome 11q24 linked/associated region. (PubMed id 17671968)^{1, 4} Miranda D.M....Barr C.L. (Am. J. Med. Genet. B Neuropsychiatr. Genet. 2008)
6. Sequence analysis of the complete SLITRK1 gene in Austrian patients with Tourette's disorder. (PubMed id 19018236)^{1, 4} Zimprich A....Stamenkovic M. (Psychiatr. Genet. 2008)
7. Examination of the SLITRK1 gene in Caucasian patients with Tourette syndrome. (PubMed id 17083340)^{1, 4} Deng H....Jankovic J. (Acta Neurol. Scand. 2006)
8. Overrepresentation of rare variants in a specific ethnic group may confuse interpretation of association analyses. (PubMed id 17035247)^{1, 4} Keen-Kim D....Freimer N.B. (Hum. Mol. Genet. 2006)
9. The DNA sequence and analysis of human chromosome 13. (PubMed id 15057823)^{1, 2} Dunham A.... Ross M.T. (Nature 2004)
10. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PubMed id 15489334)^{1, 2} Gerhard D.S.... Malek J. (Genome Res. 2004)

External Searches for SLITRK1 gene

Genome Databases showing SLITRK1 gene

Other Databases showing SLITRK1 gene

Specialized Databases showing SLITRK1 gene

Products
for SLITRK1 gene

(Antibodies, recombinant proteins, and assays from EMD Millipore, R&D Systems, OriGene, QIAGEN, GenScript, Cell Signaling Technology, Novus Biologicals, Sino Biological, Enzo Life Sciences, Abcam, ProSpec, Cloud-Clone Corp., Thermo Fisher Scientific, eBioscience, antibodies-online, GeneTex, and/or others, Gene Editing from DNA2.0. Clones from OriGene, GenScript, Sino Biological, DNA2.0, SwitchGear Genomics, Vector BioLabs, Addgene, Cell lines from GenScript, and ESI BIO, Flow cytometery from eBioscience, PCR Arrays from QIAGEN, Drugs and/or compounds from EMD Millipore, Tocris Bioscience, Enzo Life Sciences, and/or ApexBio, In Situ Hybridization Assays from
Advanced Cell Diagnostics, Animal models from genOway)
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