Nrtn (neurturin) - Rat Genome Database

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Gene: Nrtn (neurturin) Rattus norvegicus
Analyze
Symbol: Nrtn
Name: neurturin
RGD ID: 621494
Description: Enables growth factor activity. Predicted to be involved in cell surface receptor signaling pathway via STAT and glial cell-derived neurotrophic factor receptor signaling pathway. Predicted to act upstream of or within cell surface receptor protein tyrosine kinase signaling pathway; nervous system development; and neural crest cell migration. Located in axon. Human ortholog(s) of this gene implicated in Hirschsprung's disease. Orthologous to human NRTN (neurturin); INTERACTS WITH 1-naphthyl isothiocyanate; 17beta-estradiol 3-benzoate; 2,3,7,8-tetrachlorodibenzodioxine.
Type: protein-coding
RefSeq Status: VALIDATED
RGD Orthologs
Human
Mouse
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Black Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr891,669,099 - 1,674,957 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl91,641,618 - 1,675,133 (-)EnsemblGRCr8
mRatBN7.291,581,860 - 1,587,835 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl91,581,975 - 1,583,102 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx92,016,109 - 2,017,236 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.097,365,227 - 7,366,354 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.096,321,307 - 6,322,434 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0910,299,881 - 10,306,599 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl910,305,470 - 10,306,597 (+)Ensemblrn6Rnor6.0
Rnor_5.099,297,308 - 9,303,679 (+)NCBIRnor_5.0Rnor_5.0rn5
Celera96,933,647 - 6,934,774 (+)NCBICelera
Cytogenetic Map9q11NCBI
JBrowse:




Disease Annotations     Click to see Annotation Detail View

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
1,2-dimethylhydrazine  (ISO)
1-naphthyl isothiocyanate  (EXP)
17alpha-ethynylestradiol  (ISO)
17beta-estradiol  (ISO)
17beta-estradiol 3-benzoate  (EXP)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,3,7,8-Tetrachlorodibenzofuran  (EXP)
2,6-dinitrotoluene  (EXP)
3,3',5,5'-tetrabromobisphenol A  (EXP)
4,4'-diaminodiphenylmethane  (ISO)
4,4'-sulfonyldiphenol  (ISO)
4-hydroxyphenyl retinamide  (ISO)
5-aza-2'-deoxycytidine  (ISO)
6-propyl-2-thiouracil  (EXP)
acetaldehyde  (ISO)
acetamide  (EXP)
aflatoxin B1  (ISO)
all-trans-retinoic acid  (EXP)
amitrole  (EXP)
arachidonic acid  (ISO)
Aroclor 1254  (ISO)
arsane  (ISO)
arsenic atom  (ISO)
arsenous acid  (ISO)
benzo[a]pyrene  (EXP,ISO)
benzo[b]fluoranthene  (ISO)
beta-naphthoflavone  (EXP)
bis(2-ethylhexyl) phthalate  (ISO)
bisphenol A  (EXP,ISO)
bisphenol F  (ISO)
Butylbenzyl phthalate  (ISO)
cadmium atom  (ISO)
cadmium dichloride  (ISO)
carbamazepine  (ISO)
carmustine  (ISO)
chromium(6+)  (ISO)
ciguatoxin CTX1B  (ISO)
clofibrate  (ISO)
cocaine  (EXP)
copper(II) sulfate  (ISO)
coumarin  (EXP)
cyclosporin A  (ISO)
diarsenic trioxide  (ISO)
dibutyl phthalate  (EXP)
dicrotophos  (ISO)
diethylstilbestrol  (ISO)
diuron  (EXP)
dorsomorphin  (ISO)
entinostat  (ISO)
folic acid  (ISO)
furan  (EXP)
genistein  (ISO)
maneb  (ISO)
methylmercury chloride  (ISO)
Moniliformin  (ISO)
N-methyl-4-phenylpyridinium  (ISO)
N-nitrosodiethylamine  (EXP)
okadaic acid  (ISO)
oxaliplatin  (EXP)
paracetamol  (ISO)
paraquat  (ISO)
perfluorohexanesulfonic acid  (ISO)
phenethyl caffeate  (EXP)
phenethyl isothiocyanate  (EXP)
phenylmercury acetate  (ISO)
pirinixic acid  (ISO)
SB 431542  (ISO)
silicon dioxide  (ISO)
sodium arsenite  (ISO)
Soman  (EXP)
sulfadimethoxine  (EXP)
sunitinib  (ISO)
thioacetamide  (EXP)
titanium dioxide  (ISO)
topotecan  (EXP)
triacsin C  (ISO)
trichloroethene  (EXP)
trichostatin A  (ISO)
triptonide  (ISO)
urethane  (ISO)
valproic acid  (EXP,ISO)
zearalenone  (ISO)
zinc atom  (EXP)
zinc(0)  (EXP)

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. Patterns of developmental mRNA expression of neurturin and GFRalpha2 in the rat striatum and substantia nigra do not suggest a role in the regulation of natural cell death in dopamine neurons. Cho J, etal., Brain Res Dev Brain Res. 2004 Jan 31;148(1):143-9.
2. Mutation of the RET ligand, neurturin, supports multigenic inheritance in Hirschsprung disease. Doray B, etal., Hum Mol Genet. 1998 Sep;7(9):1449-52.
3. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
4. Rat ISS GO annotations from GOA human gene data--August 2006 GOA data from the GO Consortium
5. Developmental expression of glial cell-line derived neurotrophic factor, neurturin, and their receptor mRNA in the rat urinary bladder. Kawakami T, etal., Neurourol Urodyn 2003;22(1):83-8.
6. Immunohistochemical expression of two members of the GDNF family of growth factors and their receptors in the olfactory system. Maroldt H, etal., J Neurocytol. 2005 Sep;34(3-5):241-55. Epub 2006 Jul 13.
7. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
8. Electronic Transfer of LocusLink and RefSeq Data NCBI rat LocusLink and RefSeq merged data July 26, 2002
9. GOA pipeline RGD automated data pipeline
10. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
11. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
12. Comprehensive gene review and curation RGD comprehensive gene curation
13. Neurturin-deficient mice develop dry eye and keratoconjunctivitis sicca. Song XJ, etal., Invest Ophthalmol Vis Sci. 2003 Oct;44(10):4223-9.
14. Expression of the GDNF family members and their receptors in the mature rat cochlea. Stover T, etal., Brain Res Mol Brain Res 2000 Mar 10;76(1):25-35.
Additional References at PubMed
PMID:9576965   PMID:10069332   PMID:12176170   PMID:14596863   PMID:15019945   PMID:15242795   PMID:15896320   PMID:16325003   PMID:17336076   PMID:21723942   PMID:29712778   PMID:38219812  


Genomics

Comparative Map Data
Nrtn
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr891,669,099 - 1,674,957 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl91,641,618 - 1,675,133 (-)EnsemblGRCr8
mRatBN7.291,581,860 - 1,587,835 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl91,581,975 - 1,583,102 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx92,016,109 - 2,017,236 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.097,365,227 - 7,366,354 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.096,321,307 - 6,322,434 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0910,299,881 - 10,306,599 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl910,305,470 - 10,306,597 (+)Ensemblrn6Rnor6.0
Rnor_5.099,297,308 - 9,303,679 (+)NCBIRnor_5.0Rnor_5.0rn5
Celera96,933,647 - 6,934,774 (+)NCBICelera
Cytogenetic Map9q11NCBI
NRTN
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38195,805,067 - 5,828,324 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl195,805,056 - 5,828,324 (+)Ensemblhg38GRCh38
GRCh37195,805,078 - 5,828,335 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36195,774,818 - 5,779,335 (+)NCBIBuild 36Build 36hg18NCBI36
Build 34195,774,817 - 5,779,335NCBI
Celera195,762,840 - 5,767,355 (+)NCBICelera
Cytogenetic Map19p13.3NCBI
HuRef195,583,694 - 5,588,209 (+)NCBIHuRef
CHM1_1195,823,836 - 5,828,353 (+)NCBICHM1_1
T2T-CHM13v2.0195,792,545 - 5,815,815 (+)NCBIT2T-CHM13v2.0
Nrtn
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391757,058,323 - 57,064,548 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1757,058,325 - 57,064,530 (-)EnsemblGRCm39 EnsemblGRCm39
GRCm381756,751,323 - 56,757,548 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1756,751,325 - 56,757,530 (-)Ensemblmm10GRCm38
MGSCv371756,890,748 - 56,896,953 (-)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv361756,436,449 - 56,442,654 (-)NCBIMGSCv36mm8
Celera1761,095,466 - 61,101,671 (-)NCBICelera
Cytogenetic Map17DNCBI
cM Map1729.49NCBI
NRTN
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v22010,200,428 - 10,223,717 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1199,426,648 - 9,449,959 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0194,821,307 - 4,844,295 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
NRTN
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12054,228,431 - 54,242,338 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2054,211,973 - 54,242,398 (-)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha2053,955,933 - 53,970,110 (-)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.02054,865,117 - 54,884,199 (-)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2054,864,768 - 54,895,465 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12053,931,479 - 53,950,528 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02054,380,552 - 54,399,676 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02054,609,064 - 54,628,256 (-)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
Nrtn
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405118214,478,325 - 214,482,413 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365883,352,789 - 3,356,461 (+)EnsemblSpeTri2.0 Ensembl
SpeTri2.0NW_0049365883,352,440 - 3,356,457 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
NRTN
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl273,173,926 - 73,188,129 (-)EnsemblsusScr11Sscrofa11.1
Sscrofa11.1273,174,285 - 73,188,382 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2273,638,786 - 73,639,375 (+)NCBISscrofa10.2Sscrofa10.2susScr3
NRTN
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.165,444,514 - 5,458,769 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl65,444,878 - 5,458,617 (+)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
Vero_WHO_p1.0NW_0236660812,577,380 - 2,600,530 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Nrtn
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046248284,400,392 - 4,412,972 (-)EnsemblHetGla_female_1.0 EnsemblhetGla2HetGla_female_1.0 Ensembl
HetGla 1.0NW_0046248284,400,392 - 4,412,990 (-)NCBIHetGla 1.0HetGla 1.0hetGla2
Nrtn
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v1488,124,231 - 88,130,074 (-)NCBIRrattus_CSIRO_v1

Variants

.
Variants in Nrtn
17 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:74
Count of miRNA genes:64
Interacting mature miRNAs:74
Transcripts:ENSRNOT00000072592
Prediction methods: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.


QTLs in Region (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
631533Iresp3Immunoglobin response QTL316.2blood immunoglobulin E amount (VT:0002492)serum immunoglobulin E level (CMO:0002101)916094576Rat
10054141Gmadr4Adrenal mass QTL 42.450.0074adrenal gland mass (VT:0010420)both adrenal glands wet weight (CMO:0000164)9121707400Rat
9589158Gluco65Glucose level QTL 656.820.001blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)949664545496645Rat
7411592Foco8Food consumption QTL 87.40.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)949664545496645Rat
7207814Bmd91Bone mineral density QTL 913.5femur size trait (VT:1000369)femoral neck cross-sectional area (CMO:0001697)9131250552Rat
9589055Scfw5Subcutaneous fat weight QTL 55.550.001subcutaneous adipose mass (VT:1000472)abdominal subcutaneous fat pad weight (CMO:0002069)949664545496645Rat
1300124Cm4Cardiac mass QTL 43.55heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)9141763315Rat

Markers in Region
Nrtn  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.291,582,100 - 1,582,201 (-)MAPPERmRatBN7.2
Rnor_6.0910,306,371 - 10,306,471NCBIRnor6.0
Rnor_5.099,303,451 - 9,303,551UniSTSRnor5.0
Celera96,934,548 - 6,934,648UniSTS
Cytogenetic Map9q11UniSTS


Expression

RNA-SEQ Expression

alimentary part of gastrointestinal system
appendage
circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
integumental system
mesenchyme
mesoderm
musculoskeletal system
nervous system
renal system
reproductive system
respiratory system
sensory system
visual system
16 12 67 160 91 90 59 87 59 6 349 187 11 133 79 91 31 17 17

Sequence


Ensembl Acc Id: ENSRNOT00000072592   ⟹   ENSRNOP00000066997
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl91,669,008 - 1,670,018 (-)Ensembl
mRatBN7.2 Ensembl91,581,975 - 1,583,102 (-)Ensembl
Rnor_6.0 Ensembl910,305,470 - 10,306,597 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000124004   ⟹   ENSRNOP00000102591
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl91,641,618 - 1,670,228 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000135725   ⟹   ENSRNOP00000112396
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl91,669,023 - 1,675,133 (-)Ensembl
RefSeq Acc Id: NM_053399   ⟹   NP_445851
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr891,669,101 - 1,670,228 (-)NCBI
mRatBN7.291,581,975 - 1,583,102 (-)NCBI
Rnor_6.0910,305,470 - 10,306,597 (+)NCBI
Rnor_5.099,297,308 - 9,303,679 (+)NCBI
Celera96,933,647 - 6,934,774 (+)RGD
Sequence:
RefSeq Acc Id: XM_006244347   ⟹   XP_006244409
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr891,669,099 - 1,674,957 (-)NCBI
mRatBN7.291,581,860 - 1,587,835 (-)NCBI
Rnor_6.0910,299,881 - 10,306,599 (+)NCBI
Rnor_5.099,297,308 - 9,303,679 (+)NCBI
Sequence:
RefSeq Acc Id: NP_445851   ⟸   NM_053399
- Peptide Label: precursor
- UniProtKB: Q811Q5 (UniProtKB/TrEMBL),   M0RBQ2 (UniProtKB/TrEMBL),   Q9QZG0 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006244409   ⟸   XM_006244347
- Peptide Label: isoform X1
- Sequence:
Ensembl Acc Id: ENSRNOP00000066997   ⟸   ENSRNOT00000072592
Ensembl Acc Id: ENSRNOP00000102591   ⟸   ENSRNOT00000124004
Ensembl Acc Id: ENSRNOP00000112396   ⟸   ENSRNOT00000135725
Protein Domains
TGF-beta family profile

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q811Q5-F1-model_v2 AlphaFold Q811Q5 1-195 view protein structure

Transcriptome

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


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:621494 AgrOrtholog
BioCyc Gene G2FUF-28514 BioCyc
Ensembl Genes ENSRNOG00000048651 Ensembl, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000072592.3 UniProtKB/TrEMBL
  ENSRNOT00000124004.1 UniProtKB/TrEMBL
  ENSRNOT00000135725.1 UniProtKB/TrEMBL
Gene3D-CATH 2.10.90.10 UniProtKB/TrEMBL
InterPro Cystine-knot_cytokine UniProtKB/TrEMBL
  GDNF_fam UniProtKB/TrEMBL
  TGFb UniProtKB/TrEMBL
KEGG Report rno:84423 UniProtKB/TrEMBL
NCBI Gene 84423 ENTREZGENE
PANTHER NEURTURIN UniProtKB/TrEMBL
  PTHR12173 UniProtKB/TrEMBL
Pfam TGF_beta UniProtKB/TrEMBL
PhenoGen Nrtn PhenoGen
PROSITE TGF_BETA_2 UniProtKB/TrEMBL
RatGTEx ENSRNOG00000048651 RatGTEx
Superfamily-SCOP SSF57501 UniProtKB/TrEMBL
UniProt A0ABK0LN78_RAT UniProtKB/TrEMBL
  A0ABK0LNE7_RAT UniProtKB/TrEMBL
  M0RBQ2 ENTREZGENE, UniProtKB/TrEMBL
  Q811Q5 ENTREZGENE, UniProtKB/TrEMBL
  Q9QZG0 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2004-09-10 Nrtn  neurturin      Symbol and Name status set to approved 1299863 APPROVED
2002-08-07 Nrtn  neurturin      Symbol and Name status set to provisional 70820 PROVISIONAL

RGD Curation Notes
Note Type Note Reference
gene_expression expressed in the cochlea and substantia nigra 631959
gene_product member of the glial cell line-derived neurotrophic factor (GDNF)family which is a a subgroup of the TGF-beta superfamily of growth factors 631959