Itsn1 (intersectin 1) - Rat Genome Database
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Gene: Itsn1 (intersectin 1) Rattus norvegicus
Analyze
Symbol: Itsn1
Name: intersectin 1
RGD ID: 2935
Description: Predicted to have kinase activator activity; molecular adaptor activity; and proline-rich region binding activity. Involved in several processes, including positive regulation of cellular component organization; positive regulation of growth hormone secretion; and regulation of modification of postsynaptic actin cytoskeleton. Localizes to several cellular components, including clathrin-coated pit; dendrite; and glutamatergic synapse. Orthologous to human ITSN1 (intersectin 1); PARTICIPATES IN clathrin-dependent synaptic vesicle endocytosis; ephrin - ephrin receptor bidirectional signaling axis; INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 2,6-dinitrotoluene; 3,3',4,4',5-pentachlorobiphenyl.
Type: protein-coding
RefSeq Status: VALIDATED
Also known as: EH domain and SH3 domain regulator of endocytosis 1; EHSH1; intersectin (SH3 domain protein 1A); intersectin 1 (SH3 domain protein 1A); intersectin 1 (SH3 domain protein); intersectin-1; intersection (SH3 domain protein 1A); Itsn
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: Rnor_6.0 - RGSC Genome Assembly v6.0
NCBI Annotation Information: Annotation category: partial on reference assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rnor_6.01131,943,119 - 32,069,249 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1131,893,489 - 32,069,249 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01135,547,331 - 35,672,959 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41131,721,528 - 31,901,963 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11131,815,217 - 31,903,071 (+)NCBI
Celera1130,687,099 - 30,812,424 (+)NCBICelera
Cytogenetic Map11q11NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
References

Additional References at PubMed
PMID:11584276   PMID:11744688   PMID:16394100   PMID:16903783   PMID:17875942   PMID:18676989   PMID:20448150   PMID:20946875   PMID:21088884   PMID:23633571   PMID:25783631   PMID:26437238  
PMID:29476059   PMID:29599122   PMID:29887380  


Genomics

Comparative Map Data
Itsn1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rnor_6.01131,943,119 - 32,069,249 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1131,893,489 - 32,069,249 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01135,547,331 - 35,672,959 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41131,721,528 - 31,901,963 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11131,815,217 - 31,903,071 (+)NCBI
Celera1130,687,099 - 30,812,424 (+)NCBICelera
Cytogenetic Map11q11NCBI
ITSN1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl2133,642,400 - 33,899,861 (+)EnsemblGRCh38hg38GRCh38
GRCh382133,642,452 - 33,899,861 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh372135,014,706 - 35,261,609 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 362133,936,654 - 34,183,479 (+)NCBINCBI36hg18NCBI36
Build 342133,936,653 - 34,183,479NCBI
Celera2120,214,405 - 20,461,193 (+)NCBI
Cytogenetic Map21q22.11NCBI
HuRef2120,493,109 - 20,739,668 (+)NCBIHuRef
CHM1_12134,577,248 - 34,824,084 (+)NCBICHM1_1
Itsn1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391691,526,198 - 91,717,479 (+)NCBIGRCm39mm39
GRCm381691,729,310 - 91,920,591 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1691,729,281 - 91,920,597 (+)EnsemblGRCm38mm10GRCm38
MGSCv371691,729,616 - 91,920,824 (+)NCBIGRCm37mm9NCBIm37
MGSCv361691,671,052 - 91,800,868 (+)NCBImm8
Celera1692,808,009 - 93,004,876 (+)NCBICelera
Cytogenetic Map16C4NCBI
Itsn1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495540733,113,319 - 33,275,675 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495540733,056,004 - 33,275,681 (+)NCBIChiLan1.0ChiLan1.0
ITSN1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.12133,381,640 - 33,625,603 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl2133,457,081 - 33,625,248 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v02120,009,385 - 20,266,835 (+)NCBIMhudiblu_PPA_v0panPan3
ITSN1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.13129,144,754 - 29,360,134 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Itsn1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
SpeTri2.0NW_0049365008,490,514 - 8,678,127 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
ITSN1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl13197,249,061 - 197,491,830 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.113197,301,515 - 197,492,537 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.213207,205,545 - 207,267,672 (-)NCBISscrofa10.2Sscrofa10.2susScr3
ITSN1
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1258,298,529 - 58,543,297 (-)NCBI
ChlSab1.1 Ensembl258,301,399 - 58,543,281 (-)Ensembl
Itsn1
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462474521,847,593 - 22,055,141 (+)NCBI

Position Markers
D11Rat13  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.01131,987,001 - 31,987,134NCBIRnor6.0
Rnor_5.01135,591,213 - 35,591,346UniSTSRnor5.0
RGSC_v3.41131,820,214 - 31,820,348RGDRGSC3.4
RGSC_v3.41131,820,215 - 31,820,348UniSTSRGSC3.4
RGSC_v3.11131,859,087 - 31,859,220RGD
Celera1130,730,986 - 30,731,119UniSTS
Cytogenetic Map11q11UniSTS
RH 3.4 Map11202.3RGD
RH 3.4 Map11202.3UniSTS
FHH x ACI Map1112.19UniSTS
FHH x ACI Map1112.19RGD
D11Got26  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_5.01135,640,985 - 35,641,186NCBIRnor5.0
Rnor_5.01135,640,986 - 35,641,186NCBIRnor5.0
RGSC_v3.41131,869,988 - 31,870,188RGDRGSC3.4
RGSC_v3.41131,869,989 - 31,870,188UniSTSRGSC3.4
RGSC_v3.11131,908,865 - 31,909,064RGD
Celera1130,779,811 - 30,780,014UniSTS
Cytogenetic Map11q11UniSTS
RH 3.4 Map11203.1RGD
RH 3.4 Map11203.1UniSTS
RH 2.0 Map11453.4RGD
RH140585  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.01131,986,519 - 31,986,707NCBIRnor6.0
Rnor_5.01135,590,731 - 35,590,919UniSTSRnor5.0
RGSC_v3.41131,819,733 - 31,819,921UniSTSRGSC3.4
Celera1130,730,504 - 30,730,692UniSTS
Cytogenetic Map11q11UniSTS
RH 3.4 Map11176.8UniSTS
BI283741  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.01132,013,163 - 32,013,328NCBIRnor6.0
Rnor_5.01135,616,875 - 35,617,040UniSTSRnor5.0
RGSC_v3.41131,845,877 - 31,846,042UniSTSRGSC3.4
Celera1130,756,527 - 30,756,692UniSTS
Cytogenetic Map11q11UniSTS
RH 3.4 Map11198.1UniSTS
RH135361  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.01131,917,115 - 31,917,345NCBIRnor6.0
Rnor_5.01135,521,327 - 35,521,557UniSTSRnor5.0
RGSC_v3.41131,750,342 - 31,750,572UniSTSRGSC3.4
Celera1130,661,081 - 30,661,311UniSTS
Cytogenetic Map11q11UniSTS
RH 3.4 Map11200.5UniSTS
REN86881  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.01127,576,301 - 27,576,546NCBIRnor6.0
Rnor_6.01132,031,204 - 32,031,449NCBIRnor6.0
Rnor_5.01131,196,421 - 31,196,666UniSTSRnor5.0
Rnor_5.01135,634,916 - 35,635,161UniSTSRnor5.0
RGSC_v3.41131,863,918 - 31,864,163UniSTSRGSC3.4
Cytogenetic Map11q11UniSTS


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1598842Glom10Glomerulus QTL 103.4kidney glomerulus morphology trait (VT:0005325)index of glomerular damage (CMO:0001135)11133867429Rat
1300147Bp187Blood pressure QTL 1873.67arterial blood pressure trait (VT:2000000)blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)11172720192Rat
1558659Tescar1Testicular tumor resistance QTL 13.9testis integrity trait (VT:0010572)percentage of study population developing testis tumors during a period of time (CMO:0001261)1132503169342559Rat
1641927Alcrsp10Alcohol response QTL 10alcohol metabolism trait (VT:0015089)blood ethanol level (CMO:0000535)11935127454351274Rat
2290451Scl58Serum cholesterol level QTL 583.48blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)111136730644444347Rat
724517Uae18Urinary albumin excretion QTL 183.7urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)111632197346583360Rat
724554Iddm17Insulin dependent diabetes mellitus QTL 170.001blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)111901627290463843Rat
10755497Bp388Blood pressure QTL 3882.76arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)111947517979734728Rat
1598811Bp291Blood pressure QTL 2911.9arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)112194422966944229Rat
1598841Memor7Memory QTL 7exploratory behavior trait (VT:0010471)total horizontal distance resulting from voluntary locomotion in an experimental apparatus (CMO:0001443)112194422966944229Rat
634341Bw121Body weight QTL 1213.56abdominal fat pad mass (VT:1000711)abdominal fat pad weight (CMO:0000088)112204314944444112Rat
10058952Gmadr6Adrenal mass QTL 62.290.0072adrenal gland mass (VT:0010420)both adrenal glands wet weight to body weight ratio (CMO:0002411)112540112970401129Rat
9590313Scort20Serum corticosterone level QTL 206.510.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)112572003870720038Rat
9589032Epfw10Epididymal fat weight QTL 109.290.001epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)112572003870720038Rat
8694376Bw156Body weight QTL 1562.250.001body lean mass (VT:0010483)lean tissue morphological measurement (CMO:0002184)112572003870720038Rat
8694424Bw162Body weight QTL 1623.80.001body lean mass (VT:0010483)lean tissue morphological measurement (CMO:0002184)112572003870720038Rat
724563Uae10Urinary albumin excretion QTL 106urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)112831466586994795Rat
1300130Rf20Renal function QTL 204.44kidney glomerulus integrity trait (VT:0010546)kidney glomerulus diameter (CMO:0001166)113043533963186373Rat
1300110Stl7Serum triglyceride level QTL 74.64blood triglyceride amount (VT:0002644)plasma triglyceride level (CMO:0000548)113043533986714631Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:266
Count of miRNA genes:123
Interacting mature miRNAs:149
Transcripts:ENSRNOT00000042750, ENSRNOT00000047843
Prediction methods:Microtar, Miranda, Rnahybrid, Targetscan
Result types:miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.


Expression


RNA-SEQ Expression
High: > 1000 TPM value   Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM   Below Cutoff: < 0.5 TPM

alimentary part of gastrointestinal system circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High
Medium 26 34 27 11 27 5 8 74 23 33 11 5
Low 3 17 23 14 8 14 3 3 12 8 3
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000042750   ⟹   ENSRNOP00000044773
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1131,893,489 - 32,069,249 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000047843   ⟹   ENSRNOP00000045513
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1131,943,119 - 32,031,481 (+)Ensembl
RefSeq Acc Id: NM_001136096   ⟹   NP_001129568
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01131,943,121 - 32,069,249 (+)NCBI
Rnor_5.01135,547,331 - 35,672,959 (+)NCBI
RGSC_v3.41131,721,528 - 31,901,963 (+)RGD
Celera1130,687,101 - 30,812,424 (+)NCBI
Sequence:
RefSeq Acc Id: NM_019227   ⟹   NP_062100
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01131,943,119 - 32,031,481 (+)NCBI
Rnor_5.01135,547,331 - 35,672,959 (+)NCBI
RGSC_v3.41131,721,528 - 31,901,963 (+)RGD
Celera1130,687,099 - 30,792,058 (+)NCBI
Sequence:
Protein Sequences
Protein RefSeqs NP_001129568 (Get FASTA)   NCBI Sequence Viewer  
  NP_062100 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAD30271 (Get FASTA)   NCBI Sequence Viewer  
  AAD31026 (Get FASTA)   NCBI Sequence Viewer  
  EDM10741 (Get FASTA)   NCBI Sequence Viewer  
  Q9WVE9 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: NP_001129568   ⟸   NM_001136096
- Peptide Label: isoform a
- UniProtKB: D3ZV52 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: NP_062100   ⟸   NM_019227
- Peptide Label: isoform b
- Sequence:
RefSeq Acc Id: ENSRNOP00000045513   ⟸   ENSRNOT00000047843
RefSeq Acc Id: ENSRNOP00000044773   ⟸   ENSRNOT00000042750
Protein Domains
C2   DH   EF-hand   EH   PH   SH3

Transcriptome

eQTL   View at Phenogen
WGCNA   View at Phenogen
Tissue/Strain Expression   View at Phenogen


Strain Variation

Strain Sequence Variants (Rnor 6.0)
ACI/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
ACI/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
ACI/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
BBDP/Wor (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
BN/SsN (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
Buf/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
COP/CrCrl (MCW & UW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
University of Wisconsin (Dr. James Shull)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Charles River Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob) and UW Madison (Dr. James Shull)
F344/NCrl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
F344/NRrrc (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
FHH/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHH/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
FHL/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHL/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
GH/OmrMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
GK/Ox (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LE/Stm (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/Crl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/NCrlBR (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LH/MavRrrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LL/MavRrrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LN/MavRrrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
M520/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
MHS/Gib (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MNS/Gib (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MR/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
SBH/Ygl (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBH/Ygl sequenced by MCW
SBH/Ygl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SBN/Ygl (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBN/Ygl sequenced by MCW
SBN/Ygl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHR/NHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHRSP/Gcrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SR/JrHsd (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Harlan Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SR/JrHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/Jr (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/JrHsdMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SS/JrHsdMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WAG/Rij (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/Gcrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
WKY/NCrl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/NHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WN/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:2935 AgrOrtholog
BIND 130893
Ensembl Genes ENSRNOG00000002001 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Protein ENSRNOP00000044773 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSRNOP00000045513 ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000042750 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSRNOT00000047843 ENTREZGENE, UniProtKB/Swiss-Prot
Gene3D-CATH 1.20.900.10 UniProtKB/Swiss-Prot
  2.30.29.30 UniProtKB/Swiss-Prot
  2.60.40.150 UniProtKB/Swiss-Prot
InterPro C2_dom UniProtKB/Swiss-Prot
  C2_domain_sf UniProtKB/Swiss-Prot
  DBL_dom_sf UniProtKB/Swiss-Prot
  DH-domain UniProtKB/Swiss-Prot
  EF-hand-dom_pair UniProtKB/Swiss-Prot
  EF_Hand_1_Ca_BS UniProtKB/Swiss-Prot
  EF_hand_dom UniProtKB/Swiss-Prot
  EH_dom UniProtKB/Swiss-Prot
  GDS_CDC24_CS UniProtKB/Swiss-Prot
  PH-like_dom_sf UniProtKB/Swiss-Prot
  PH_domain UniProtKB/Swiss-Prot
  SH3-like_dom_sf UniProtKB/Swiss-Prot
  SH3_domain UniProtKB/Swiss-Prot
KEGG Report rno:29491 UniProtKB/Swiss-Prot
NCBI Gene 29491 ENTREZGENE
Pfam EF-hand_4 UniProtKB/Swiss-Prot
  PF00168 UniProtKB/Swiss-Prot
  PH_13 UniProtKB/Swiss-Prot
  RhoGEF UniProtKB/Swiss-Prot
  SH3_1 UniProtKB/Swiss-Prot
  SH3_2 UniProtKB/Swiss-Prot
  SH3_9 UniProtKB/Swiss-Prot
PhenoGen Itsn1 PhenoGen
PRINTS SH3DOMAIN UniProtKB/Swiss-Prot
PROSITE DH_1 UniProtKB/Swiss-Prot
  DH_2 UniProtKB/Swiss-Prot
  EF_HAND_1 UniProtKB/Swiss-Prot
  EF_HAND_2 UniProtKB/Swiss-Prot
  PH_DOMAIN UniProtKB/Swiss-Prot
  PS50004 UniProtKB/Swiss-Prot
  PS50031 UniProtKB/Swiss-Prot
  SH3 UniProtKB/Swiss-Prot
SMART EFh UniProtKB/Swiss-Prot
  RhoGEF UniProtKB/Swiss-Prot
  SH3 UniProtKB/Swiss-Prot
  SM00027 UniProtKB/Swiss-Prot
  SM00233 UniProtKB/Swiss-Prot
  SM00239 UniProtKB/Swiss-Prot
Superfamily-SCOP SSF47473 UniProtKB/Swiss-Prot
  SSF48065 UniProtKB/Swiss-Prot
  SSF50044 UniProtKB/Swiss-Prot
TIGR TC220013
UniGene Rn.48657 ENTREZGENE
UniProt D3ZV52 ENTREZGENE
  ITSN1_RAT UniProtKB/Swiss-Prot, ENTREZGENE
UniProt Secondary D3ZV52 UniProtKB/Swiss-Prot
  F1M823 UniProtKB/Swiss-Prot
  Q9WVE1 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2015-11-19 Itsn1  intersectin 1  Itsn1  intersectin 1 (SH3 domain protein)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-11-17 Itsn1  intersectin 1 (SH3 domain protein)  Itsn1  intersectin 1 (SH3 domain protein 1A)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-05-19 Itsn1  intersectin 1 (SH3 domain protein 1A)  Itsn1  intersectin 1  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-03-30 Itsn1  intersectin 1  Itsn    Symbol updated 1299863 APPROVED
2002-06-10 Itsn  intersectin 1      Name updated 70584 APPROVED

RGD Curation Notes
Note Type Note Reference
gene_domains has two EH domains,a central KLERQ domain and five SH3 domains 69862
gene_expression expressed abundantly in the brain 69862
gene_function an adaptor protein which participates in ther coupling of endocytic membrane traffic to exocytosis 69862