Cdnf (cerebral dopamine neurotrophic factor) - Rat Genome Database

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Gene: Cdnf (cerebral dopamine neurotrophic factor) Rattus norvegicus
Analyze
Symbol: Cdnf
Name: cerebral dopamine neurotrophic factor
RGD ID: 1307600
Description: Predicted to enable growth factor activity. Predicted to be involved in dopaminergic neuron differentiation and neuron projection development. Predicted to be active in endoplasmic reticulum and extracellular space. Orthologous to human CDNF (cerebral dopamine neurotrophic factor); INTERACTS WITH agathisflavone; alpha-Zearalanol; bisphenol A.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: arginine-rich protein mutated in early stage tumors-like 1; arginine-rich, mutated in early stage tumors-like 1; ARMET-like protein 1; Armetl1; conserved dopamine neurotrophic factor; LOC361276
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Alliance Orthologs
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81779,623,728 - 79,637,800 (-)NCBIGRCr8
mRatBN7.21774,714,564 - 74,728,639 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1774,713,564 - 74,728,639 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1778,167,908 - 78,181,939 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01782,016,045 - 82,030,129 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01776,051,344 - 76,065,373 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01778,721,230 - 78,735,324 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1778,719,111 - 78,735,324 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01780,366,184 - 80,379,144 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41785,834,236 - 85,848,287 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11785,845,068 - 85,859,120 (-)NCBI
Celera1774,100,626 - 74,114,537 (-)NCBICelera
Cytogenetic Map17q12.3NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. 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.
2. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:21235575   PMID:23624196   PMID:26271594   PMID:28553166   PMID:33154393  


Genomics

Comparative Map Data
Cdnf
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81779,623,728 - 79,637,800 (-)NCBIGRCr8
mRatBN7.21774,714,564 - 74,728,639 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1774,713,564 - 74,728,639 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1778,167,908 - 78,181,939 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01782,016,045 - 82,030,129 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01776,051,344 - 76,065,373 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01778,721,230 - 78,735,324 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1778,719,111 - 78,735,324 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01780,366,184 - 80,379,144 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41785,834,236 - 85,848,287 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11785,845,068 - 85,859,120 (-)NCBI
Celera1774,100,626 - 74,114,537 (-)NCBICelera
Cytogenetic Map17q12.3NCBI
CDNF
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381014,819,245 - 14,838,037 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1014,819,245 - 14,838,575 (-)EnsemblGRCh38hg38GRCh38
GRCh371014,861,244 - 14,880,036 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361014,901,257 - 14,919,989 (-)NCBINCBI36Build 36hg18NCBI36
Celera1014,789,300 - 14,808,023 (-)NCBICelera
Cytogenetic Map10p13NCBI
HuRef1014,771,897 - 14,790,630 (-)NCBIHuRef
CHM1_11014,861,668 - 14,880,382 (-)NCBICHM1_1
T2T-CHM13v2.01014,833,219 - 14,852,002 (-)NCBIT2T-CHM13v2.0
Cdnf
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm3923,514,102 - 3,527,413 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl23,514,067 - 3,527,413 (+)EnsemblGRCm39 Ensembl
GRCm3823,513,065 - 3,526,376 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl23,513,030 - 3,526,376 (+)EnsemblGRCm38mm10GRCm38
MGSCv3723,430,337 - 3,443,648 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv3623,430,337 - 3,443,648 (+)NCBIMGSCv36mm8
Celera23,463,708 - 3,477,022 (+)NCBICelera
Cytogenetic Map2A1NCBI
cM Map21.99NCBI
Cdnf
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495542919,583,041 - 19,593,792 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495542919,586,841 - 19,592,727 (+)NCBIChiLan1.0ChiLan1.0
CDNF
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2827,345,792 - 27,363,885 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11027,351,120 - 27,369,213 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01014,823,105 - 14,841,698 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11015,151,359 - 15,169,689 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1015,151,359 - 15,169,689 (-)Ensemblpanpan1.1panPan2
CDNF
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1221,795,701 - 21,814,359 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl221,795,821 - 21,814,320 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha218,909,001 - 18,927,647 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0222,097,384 - 22,116,050 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl222,097,349 - 22,116,011 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1219,297,755 - 19,316,135 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0220,132,502 - 20,150,919 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0220,759,161 - 20,777,858 (+)NCBIUU_Cfam_GSD_1.0
Cdnf
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_0244093446,836,052 - 6,855,784 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049366131,387,568 - 1,406,370 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049366131,386,249 - 1,406,295 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CDNF
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.11046,935,530 - 46,963,926 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21051,667,672 - 51,687,019 (+)NCBISscrofa10.2Sscrofa10.2susScr3
CDNF
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1914,843,382 - 14,860,981 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl914,842,990 - 14,861,013 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366605120,381,826 - 20,399,858 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0

Variants

.
Variants in Cdnf
107 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:25
Count of miRNA genes:24
Interacting mature miRNAs:24
Transcripts:ENSRNOT00000036299
Prediction methods:Miranda, Rnahybrid
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 (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
724549Niddm56Non-insulin dependent diabetes mellitus QTL 560.03blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)173199078476990784Rat
1354663Bvd5Brain ventricular dilatation QTL 53.510.001brain ventricle morphology trait (VT:0000822)hydrocephalus severity score (CMO:0001881)173199078481292925Rat
2301412Kidm40Kidney mass QTL 400.001kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)173747984782479847Rat
2317054Aia12Adjuvant induced arthritis QTL 124.24joint integrity trait (VT:0010548)left rear ankle joint diameter (CMO:0002149)173828150983281509Rat
2317060Aia26Adjuvant induced arthritis QTL 263.22joint integrity trait (VT:0010548)right rear ankle joint diameter (CMO:0002150)173828150983281509Rat
1598871Memor5Memory QTL 55.3exploratory behavior trait (VT:0010471)total horizontal distance resulting from voluntary locomotion in an experimental apparatus (CMO:0001443)174054004180387013Rat
1358295Aocep1Aortic cell protein QTL 16.10.00000071thoracic aorta cellular protein amount (VT:0010598)aortic cell percentage174099000585990005Rat
7411575Bw140Body weight QTL 14030.20.001body mass (VT:0001259)body weight gain (CMO:0000420)174856093586533673Rat
8694181Bw151Body weight QTL 1514.360.001body mass (VT:0001259)body weight gain (CMO:0000420)174856093586533673Rat
2317038Ginf3Gastrointestinal inflammation QTL 32.890.005liver integrity trait (VT:0010547)liver granuloma severity score (CMO:0002157)174992015486533673Rat
2303580Gluco49Glucose level QTL 492blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)175004027186533673Rat
4889894Eae33Experimental allergic encephalomyelitis QTL 335.20.0001nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis severity score (CMO:0001419)175090909986022412Rat
1354588Bvd4Brain ventricular dilatation QTL 45.310.001brain ventricle morphology trait (VT:0000822)hydrocephalus severity score (CMO:0001881)175349882882479847Rat
2302365Gluco40Glucose level QTL 404.79blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)175724684382046127Rat
7488963Bp369Blood pressure QTL 3690.001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)175900564977910000Rat
2317045Aia11Adjuvant induced arthritis QTL 114.06joint integrity trait (VT:0010548)left rear ankle joint diameter (CMO:0002149)176078142686533673Rat
7411577Bw141Body weight QTL 1410.001body mass (VT:0001259)body weight gain (CMO:0000420)176261951686533673Rat
631502Cm26Cardiac mass QTL 263.71heart left ventricle mass (VT:0007031)heart left ventricle wet weight (CMO:0000071)176570358081153923Rat
1300129Rf25Renal function QTL 253.03blood creatinine amount (VT:0005328)creatinine clearance (CMO:0000765)177100332581153923Rat
12904736Cm121Cardiac mass QTL 1210.043heart mass (VT:0007028)heart wet weight to body weight ratio (CMO:0002408)177177462182479847Rat


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 16 7 10 4 7
Low 2 17 20 4 18 4 1 1 22 9 17 10 1
Below cutoff 1 10 24 24 1 24 52 26 20 1

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000036299   ⟹   ENSRNOP00000030751
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1774,713,564 - 74,728,639 (-)Ensembl
Rnor_6.0 Ensembl1778,719,111 - 78,735,324 (-)Ensembl
RefSeq Acc Id: NM_001037543   ⟹   NP_001032632
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81779,623,728 - 79,637,800 (-)NCBI
mRatBN7.21774,714,564 - 74,728,639 (-)NCBI
Rnor_6.01778,721,230 - 78,735,324 (-)NCBI
Rnor_5.01780,366,184 - 80,379,144 (-)NCBI
RGSC_v3.41785,834,236 - 85,848,287 (-)RGD
Celera1774,100,626 - 74,114,537 (-)RGD
Sequence:
Protein Sequences
Protein RefSeqs NP_001032632 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EDL78688 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000030751
  ENSRNOP00000030751.2
  ENSRNOP00055015463
GenBank Protein P0C5I0 (Get FASTA)   NCBI Sequence Viewer  
Reference Protein Sequences
RefSeq Acc Id: NP_001032632   ⟸   NM_001037543
- Peptide Label: precursor
- UniProtKB: P0C5I0 (UniProtKB/Swiss-Prot),   A6JM11 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000030751   ⟸   ENSRNOT00000036299
Protein Domains
ARMET C-terminal   ARMET N-terminal

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-P0C5I0-F1-model_v2 AlphaFold P0C5I0 1-187 view protein structure

Transcriptome

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

Promoters
RGD ID:13700579
Promoter ID:EPDNEW_R11103
Type:single initiation site
Name:Cdnf_1
Description:cerebral dopamine neurotrophic factor
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01778,735,342 - 78,735,402EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1307600 AgrOrtholog
BioCyc Gene G2FUF-8654 BioCyc
Ensembl Genes ENSRNOG00000026493 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
  ENSRNOG00055011323 UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000036299 ENTREZGENE
  ENSRNOT00000036299.4 UniProtKB/Swiss-Prot
  ENSRNOT00055019188 UniProtKB/Swiss-Prot
Gene3D-CATH 1.10.720.30 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Saposin-like UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
InterPro ARMET-like UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  ARMET_C UniProtKB/TrEMBL
  ARMET_N UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Armet_prot UniProtKB/Swiss-Prot
  SAP_dom_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:361276 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
NCBI Gene 361276 ENTREZGENE
PANTHER ARMET-LIKE PROTEIN UniProtKB/TrEMBL
  CEREBRAL DOPAMINE NEUROTROPHIC FACTOR UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PTHR12990 UniProtKB/Swiss-Prot
Pfam Armet UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  ARMET_N UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Cdnf PhenoGen
RatGTEx ENSRNOG00000026493 RatGTEx
  ENSRNOG00055011323 RatGTEx
Superfamily-SCOP SAP domain UniProtKB/TrEMBL, UniProtKB/Swiss-Prot
UniProt A6JM11 ENTREZGENE, UniProtKB/TrEMBL
  CDNF_RAT UniProtKB/Swiss-Prot, ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2009-09-17 Cdnf  cerebral dopamine neurotrophic factor  Armetl1  arginine-rich, mutated in early stage tumors-like 1   Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-04-30 Armetl1  arginine-rich, mutated in early stage tumors-like 1   Armetl1_predicted  arginine-rich, mutated in early stage tumors-like 1 (predicted)  'predicted' is removed 2292626 APPROVED
2005-01-12 Armetl1_predicted  arginine-rich, mutated in early stage tumors-like 1 (predicted)      Symbol and Name status set to approved 70820 APPROVED