Ntn1 (netrin 1) - Rat Genome Database

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Gene: Ntn1 (netrin 1) Ictidomys tridecemlineatus
Analyze
Symbol: Ntn1
Name: netrin 1
RGD ID: 12639609
Description: INVOLVED IN anterior/posterior axon guidance (ortholog); axon guidance (ortholog); axonogenesis (ortholog); ASSOCIATED WITH Alzheimer's disease (ortholog); brain edema (ortholog); Chemical and Drug Induced Liver Injury (ortholog); FOUND IN glutamatergic synapse (ortholog); synapse (ortholog)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: netrin-1
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: SpeTri2.0 - Squirrel SpeTri2.0 Assembly
Position:
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440560248,672,178 - 48,849,151 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365952,146,366 - 2,323,399 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049365952,146,371 - 2,323,346 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

References
Additional References at PubMed
PMID:22301074  


Genomics

Comparative Map Data
Ntn1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440560248,672,178 - 48,849,151 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365952,146,366 - 2,323,399 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049365952,146,371 - 2,323,346 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
NTN1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38179,003,087 - 9,244,000 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl179,021,510 - 9,244,000 (+)EnsemblGRCh38hg38GRCh38
GRCh37178,924,827 - 9,147,317 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36178,865,584 - 9,088,042 (+)NCBINCBI36Build 36hg18NCBI36
Build 34178,865,583 - 9,084,078NCBI
Celera178,956,718 - 9,179,095 (+)NCBICelera
Cytogenetic Map17p13.1NCBI
HuRef178,823,748 - 9,046,260 (+)NCBIHuRef
CHM1_1178,934,056 - 9,156,348 (+)NCBICHM1_1
T2T-CHM13v2.0178,910,268 - 9,150,998 (+)NCBIT2T-CHM13v2.0
Ntn1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391168,100,190 - 68,277,652 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1168,100,190 - 68,291,649 (-)EnsemblGRCm39 Ensembl
GRCm381168,209,364 - 68,386,826 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1168,209,364 - 68,400,823 (-)EnsemblGRCm38mm10GRCm38
MGSCv371168,022,866 - 68,200,328 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361168,029,201 - 68,202,315 (-)NCBIMGSCv36mm8
Celera1175,146,897 - 75,324,142 (-)NCBICelera
Cytogenetic Map11B3NCBI
cM Map1141.45NCBI
Ntn1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81053,398,852 - 53,597,595 (-)NCBIGRCr8
mRatBN7.21052,899,933 - 53,098,591 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1052,899,934 - 53,085,326 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1057,569,983 - 57,744,352 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01057,059,000 - 57,233,370 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01052,559,808 - 52,740,213 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01054,761,925 - 54,982,072 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1054,761,871 - 54,967,585 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01054,507,464 - 54,725,989 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41054,950,521 - 55,133,536 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11054,964,143 - 55,147,159 (-)NCBI
Celera1052,078,465 - 52,253,812 (-)NCBICelera
Cytogenetic Map10q24NCBI
Ntn1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554677,794,735 - 7,991,695 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049554677,795,175 - 7,991,597 (-)NCBIChiLan1.0ChiLan1.0
NTN1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21964,503,878 - 64,726,212 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11769,313,754 - 69,536,000 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01742,409,797 - 42,631,930 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11747,148,384 - 47,368,127 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1747,152,225 - 47,368,134 (-)Ensemblpanpan1.1panPan2
NTN1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1533,654,723 - 33,825,832 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl533,637,142 - 33,825,899 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha533,791,096 - 33,962,030 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0533,758,267 - 33,929,266 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl533,757,152 - 33,929,220 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1533,725,541 - 33,896,204 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0533,683,225 - 33,853,961 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0533,859,633 - 34,030,422 (+)NCBIUU_Cfam_GSD_1.0
NTN1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1254,089,472 - 54,292,193 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11254,089,444 - 54,292,191 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21256,822,597 - 57,056,391 (+)NCBISscrofa10.2Sscrofa10.2susScr3
NTN1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1168,359,682 - 8,603,231 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl168,379,129 - 8,603,223 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366605912,748,497 - 13,022,123 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Ntn1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462478611,526,050 - 11,703,258 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462478611,508,643 - 11,707,060 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2


Expression

RNA-SEQ Expression


Sequence

Nucleotide Sequences
RefSeq Transcripts XM_005332906 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide JAESOR010000662 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Ensembl Acc Id: ENSSTOT00000000728   ⟹   ENSSTOP00000000652
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
SpeTri2.0 EnsemblNW_0049365952,146,366 - 2,323,399 (+)Ensembl
RefSeq Acc Id: XM_005332906   ⟹   XP_005332963
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2NW_02440560248,672,178 - 48,849,151 (+)NCBI
SpeTri2.0NW_0049365952,146,371 - 2,323,346 (+)NCBI
Sequence:
Protein Sequences
Protein RefSeqs XP_005332963 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSSTOP00000000652.3
GenBank Protein KAG3269964 (Get FASTA)   NCBI Sequence Viewer  
RefSeq Acc Id: XP_005332963   ⟸   XM_005332906
- UniProtKB: I3LX86 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSSTOP00000000652   ⟸   ENSSTOT00000000728
Protein Domains
Laminin EGF-like   Laminin N-terminal   NTR


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSSTOG00000000729 Ensembl, UniProtKB/TrEMBL
Ensembl Transcript ENSSTOT00000000728.3 UniProtKB/TrEMBL
Gene3D-CATH 2.40.50.120 UniProtKB/TrEMBL
  Galactose-binding domain-like UniProtKB/TrEMBL
  Laminin UniProtKB/TrEMBL
InterPro Galactose-bd-like_sf UniProtKB/TrEMBL
  Laminin/Netrin_ECM UniProtKB/TrEMBL
  Laminin_EGF UniProtKB/TrEMBL
  Laminin_N UniProtKB/TrEMBL
  Netrin_domain UniProtKB/TrEMBL
  Netrin_module_non-TIMP UniProtKB/TrEMBL
  TIMP-like_OB-fold UniProtKB/TrEMBL
NCBI Gene Ntn1 ENTREZGENE
PANTHER LAMININ SUBUNIT GAMMA-1 UniProtKB/TrEMBL
  NETRIN/LAMININ-RELATED UniProtKB/TrEMBL
Pfam Laminin_EGF UniProtKB/TrEMBL
  Laminin_N UniProtKB/TrEMBL
  NTR UniProtKB/TrEMBL
PROSITE EGF_LAM_1 UniProtKB/TrEMBL
  EGF_LAM_2 UniProtKB/TrEMBL
  LAMININ_NTER UniProtKB/TrEMBL
  NTR UniProtKB/TrEMBL
SMART C345C UniProtKB/TrEMBL
  EGF_Lam UniProtKB/TrEMBL
  LamNT UniProtKB/TrEMBL
Superfamily-SCOP EGF/Laminin UniProtKB/TrEMBL
  SSF49785 UniProtKB/TrEMBL
  SSF50242 UniProtKB/TrEMBL
UniProt I3LX86 ENTREZGENE, UniProtKB/TrEMBL