NDNF (neuron derived neurotrophic factor) - Rat Genome Database

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Gene: NDNF (neuron derived neurotrophic factor) Sus scrofa
Analyze
Symbol: NDNF
Name: neuron derived neurotrophic factor
RGD ID: 14289301
Description: ENCODES a protein that exhibits glycosaminoglycan binding (inferred); heparin binding (inferred); INVOLVED IN extracellular matrix organization (ortholog); positive regulation of cell-substrate adhesion (ortholog); ASSOCIATED WITH endometriosis (ortholog); Hypogonadotropic Hypogonadism 25 with Anosmia (ortholog); neurodevelopmental disorder with hearing loss, seizures, and brain abnormalities (ortholog); FOUND IN extracellular space (ortholog)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: protein NDNF
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Squirrel
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: Sscrofa11.1 - Pig Sscrofa11.1 Assembly
Position:
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl8102,996,281 - 103,088,230 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.18103,047,783 - 103,094,800 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.28110,382,585 - 110,544,736 (+)NCBISscrofa10.2Sscrofa10.2susScr3
JBrowse: View Region in Genome Browser (JBrowse)
Model


References
Additional References at PubMed
PMID:22301074   PMID:30032202  


Genomics

Comparative Map Data
NDNF
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl8102,996,281 - 103,088,230 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.18103,047,783 - 103,094,800 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.28110,382,585 - 110,544,736 (+)NCBISscrofa10.2Sscrofa10.2susScr3
NDNF
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh384121,035,613 - 121,072,535 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl4121,035,613 - 121,073,021 (-)EnsemblGRCh38hg38GRCh38
GRCh374121,956,768 - 121,993,690 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 364122,176,232 - 122,213,123 (-)NCBINCBI36Build 36hg18NCBI36
Celera4119,341,856 - 119,378,753 (-)NCBICelera
Cytogenetic Map4q27NCBI
HuRef4117,683,742 - 117,720,651 (-)NCBIHuRef
CHM1_14121,933,274 - 121,970,187 (-)NCBICHM1_1
T2T-CHM13v2.04124,339,896 - 124,376,833 (-)NCBIT2T-CHM13v2.0
Ndnf
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39665,648,595 - 65,689,307 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl665,648,574 - 65,689,310 (+)EnsemblGRCm39 Ensembl
GRCm38665,671,611 - 65,712,323 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl665,671,590 - 65,712,326 (+)EnsemblGRCm38mm10GRCm38
MGSCv37665,621,605 - 65,656,924 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36665,601,189 - 65,636,508 (+)NCBIMGSCv36mm8
Celera667,797,717 - 67,833,030 (+)NCBICelera
Cytogenetic Map6C1NCBI
cM Map630.29NCBI
Ndnf
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8496,274,147 - 96,311,624 (+)NCBIGRCr8
mRatBN7.2494,944,392 - 94,981,871 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl494,944,360 - 94,981,873 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx4100,193,058 - 100,230,529 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0495,968,010 - 96,005,484 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0494,369,186 - 94,406,663 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0496,528,830 - 96,565,780 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl496,562,725 - 96,564,611 (+)NCBIRnor6.0rn6Rnor6.0
Rnor_5.04161,312,929 - 161,350,269 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4495,313,453 - 95,350,122 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1495,362,576 - 95,593,810 (+)NCBI
Celera489,680,807 - 89,717,405 (+)NCBICelera
Cytogenetic Map4q31NCBI
Ndnf
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495542819,552,493 - 19,587,712 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495542819,552,493 - 19,587,712 (+)NCBIChiLan1.0ChiLan1.0
NDNF
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v23118,827,117 - 118,864,569 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan14119,105,165 - 119,148,571 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v04113,242,800 - 113,283,834 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.14124,379,629 - 124,422,793 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl4124,386,606 - 124,422,793 (-)Ensemblpanpan1.1panPan2
NDNF
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11919,009,966 - 19,053,047 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1919,036,372 - 19,049,937 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1919,232,899 - 19,275,734 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.01919,136,515 - 19,179,608 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1919,136,294 - 19,177,150 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11919,095,810 - 19,138,637 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01919,367,085 - 19,409,920 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01919,845,970 - 19,888,691 (+)NCBIUU_Cfam_GSD_1.0
Ndnf
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440530166,494,805 - 66,525,931 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_004936662594,331 - 624,980 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_004936662593,848 - 624,974 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
NDNF
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1768,320,045 - 68,356,644 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl768,320,690 - 68,356,577 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366603747,281,797 - 47,324,186 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Ndnf
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247771,035,991 - 1,072,996 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046247771,036,389 - 1,072,271 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in NDNF
1047 total Variants

Expression

RNA-SEQ Expression

alimentary part of gastrointestinal system
circulatory system
ectoderm
endocrine system
hemolymphoid system
mesenchyme
mesoderm
nervous system
renal system
reproductive system
respiratory system
10 4 23 3 5 13 11 23 2 6 1

Sequence


Ensembl Acc Id: ENSSSCT00000009965   ⟹   ENSSSCP00000009708
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl8103,047,238 - 103,088,268 (+)Ensembl
Ensembl Acc Id: ENSSSCT00000030696   ⟹   ENSSSCP00000025191
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl8102,996,281 - 103,088,230 (+)Ensembl
RefSeq Acc Id: XM_003482448   ⟹   XP_003482496
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.18103,047,783 - 103,094,800 (+)NCBI
Sequence:
RefSeq Acc Id: XP_003482496   ⟸   XM_003482448
- UniProtKB: I3LM70 (UniProtKB/TrEMBL),   A0A480Y2S8 (UniProtKB/TrEMBL),   A0A8D0LXI7 (UniProtKB/TrEMBL),   A0A8D1G6D7 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSSSCP00000025191   ⟸   ENSSSCT00000030696
Ensembl Acc Id: ENSSSCP00000009708   ⟸   ENSSSCT00000009965
Protein Domains
Fibronectin type-III


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSSSCG00000029260 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
  ENSSSCG00015069463 UniProtKB/TrEMBL
  ENSSSCG00030048489 UniProtKB/TrEMBL
  ENSSSCG00035030108 UniProtKB/TrEMBL
  ENSSSCG00040005224 UniProtKB/TrEMBL
  ENSSSCG00045000076 UniProtKB/TrEMBL
  ENSSSCG00050054794 UniProtKB/TrEMBL
  ENSSSCG00065056312 UniProtKB/TrEMBL
Ensembl Transcript ENSSSCT00000030696 ENTREZGENE
  ENSSSCT00000030696.4 UniProtKB/TrEMBL
  ENSSSCT00015093024.1 UniProtKB/TrEMBL
  ENSSSCT00030067692.1 UniProtKB/TrEMBL
  ENSSSCT00035039896.1 UniProtKB/TrEMBL
  ENSSSCT00040006926.1 UniProtKB/TrEMBL
  ENSSSCT00045000096.1 UniProtKB/TrEMBL
  ENSSSCT00050074739.1 UniProtKB/TrEMBL
  ENSSSCT00065077077.1 UniProtKB/TrEMBL
Gene3D-CATH 2.60.40.10 UniProtKB/TrEMBL
InterPro DUF2369 UniProtKB/TrEMBL
  FN3_dom UniProtKB/TrEMBL
  FN3_sf UniProtKB/TrEMBL
  Ig-like_fold UniProtKB/TrEMBL
  NDNF_C UniProtKB/TrEMBL
KEGG Report ssc:100738736 UniProtKB/TrEMBL
NCBI Gene NDNF ENTREZGENE
PANTHER PROTEIN NDNF UniProtKB/TrEMBL
  PTHR14619 UniProtKB/TrEMBL
Pfam DUF2369 UniProtKB/TrEMBL
  NDNF_C UniProtKB/TrEMBL
SMART FN3 UniProtKB/TrEMBL
Superfamily-SCOP SSF49265 UniProtKB/TrEMBL
UniProt A0A480Y2S8 ENTREZGENE, UniProtKB/TrEMBL
  A0A8D0LXI7 ENTREZGENE
  A0A8D1G6D7 ENTREZGENE, UniProtKB/TrEMBL
  I3LM70 ENTREZGENE
UniProt Secondary I3LM70 UniProtKB/TrEMBL
VGNC ID VGNC:90629 ENTREZGENE