Prom1 (prominin 1) - Rat Genome Database

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Gene: Prom1 (prominin 1) Rattus norvegicus
Analyze
Symbol: Prom1
Name: prominin 1
RGD ID: 69367
Description: Predicted to enable actinin binding activity; cadherin binding activity; and cholesterol binding activity. Predicted to be involved in several processes, including glomerular epithelial cell differentiation; photoreceptor cell maintenance; and retina morphogenesis in camera-type eye. Predicted to be located in several cellular components, including endoplasmic reticulum-Golgi intermediate compartment; extracellular exosome; and photoreceptor outer segment membrane. Predicted to be active in several cellular components, including apical plasma membrane; microvillus; and prominosome. Predicted to be integral component of plasma membrane. Used to study diabetes mellitus. Human ortholog(s) of this gene implicated in cone-rod dystrophy 12 and retinitis pigmentosa 41. Orthologous to human PROM1 (prominin 1); INTERACTS WITH 17alpha-ethynylestradiol; 2,3,7,8-tetrachlorodibenzodioxine; 2,3,7,8-Tetrachlorodibenzofuran.
Type: protein-coding
RefSeq Status: VALIDATED
Also known as: CD133; fudenine; MGC156650; Prom; prominin; prominin-1
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
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21466,989,545 - 67,094,534 (+)NCBImRatBN7.2
Rnor_6.0 Ensembl1471,533,063 - 71,637,417 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.01471,532,321 - 71,637,400 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01471,573,130 - 71,668,097 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41472,122,986 - 72,230,453 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11472,125,409 - 72,232,843 (+)NCBI
Celera1465,949,815 - 66,052,606 (+)NCBICelera
Cytogenetic Map14q21NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(20S)-ginsenoside Rg3  (ISO)
(S)-naringenin  (ISO)
1,1-dichloroethene  (ISO)
1,2-dichloroethane  (ISO)
1,2-dimethylhydrazine  (ISO)
17alpha-ethynylestradiol  (EXP)
17beta-estradiol  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,3,7,8-Tetrachlorodibenzofuran  (EXP)
2,4-dinitrotoluene  (EXP)
2-acetamidofluorene  (EXP)
2-butoxyethanol  (ISO)
3,5-diethoxycarbonyl-1,4-dihydrocollidine  (ISO)
4,4'-diaminodiphenylmethane  (ISO)
4,4'-sulfonyldiphenol  (ISO)
4-hydroxyphenyl retinamide  (ISO)
5-aza-2'-deoxycytidine  (ISO)
5-azacytidine  (EXP)
5-fluorouracil  (ISO)
acetamide  (EXP)
acrylamide  (ISO)
actinomycin D  (ISO)
aflatoxin B1  (EXP,ISO)
aflatoxin B2  (ISO)
ammonium chloride  (EXP)
apigenin  (ISO)
arsenous acid  (ISO)
auramine O  (ISO)
azathioprine  (ISO)
benzo[a]pyrene  (ISO)
beta-naphthoflavone  (EXP)
bexarotene  (EXP)
bisphenol A  (EXP,ISO)
bisphenol F  (ISO)
butane-2,3-dione  (ISO)
butyric acid  (ISO)
cadmium dichloride  (EXP)
carbon nanotube  (ISO)
chloroprene  (ISO)
chlorpyrifos  (ISO)
choline  (ISO)
ciprofloxacin  (ISO)
cisplatin  (ISO)
cobalt dichloride  (ISO)
copper atom  (EXP,ISO)
copper(0)  (EXP,ISO)
copper(II) sulfate  (ISO)
crizotinib  (ISO)
crocidolite asbestos  (ISO)
cyclosporin A  (ISO)
daunorubicin  (EXP)
diallyl trisulfide  (ISO)
diarsenic trioxide  (ISO)
dibutyl phthalate  (EXP)
diethylstilbestrol  (ISO)
dioxygen  (ISO)
diuron  (EXP)
dorsomorphin  (ISO)
eckol  (ISO)
endosulfan  (EXP)
ethanol  (EXP,ISO)
ethyl methanesulfonate  (ISO)
fisetin  (ISO)
folic acid  (ISO)
furan  (EXP,ISO)
genistein  (ISO)
glycidol  (EXP)
irinotecan  (ISO)
L-methionine  (ISO)
lead diacetate  (ISO)
lupeol  (ISO)
melatonin  (ISO)
methamphetamine  (EXP)
methapyrilene  (ISO)
methyl methanesulfonate  (ISO)
N-methyl-4-phenylpyridinium  (ISO)
N-nitrosodiethylamine  (EXP,ISO)
N-nitrosodimethylamine  (ISO)
oxaliplatin  (EXP)
paclitaxel  (ISO)
pentane-2,3-dione  (ISO)
perfluorooctane-1-sulfonic acid  (EXP)
phenethyl caffeate  (EXP)
phenobarbital  (ISO)
phenylmercury acetate  (ISO)
pirinixic acid  (ISO)
pregnenolone 16alpha-carbonitrile  (ISO)
progesterone  (ISO)
propiconazole  (ISO)
pyrazinecarboxamide  (EXP)
quercetin  (ISO)
ritodrine  (ISO)
rotenone  (ISO)
SB 431542  (ISO)
SCH 23390  (EXP)
silver atom  (ISO)
silver(0)  (ISO)
sodium arsenite  (EXP,ISO)
sodium fluoride  (ISO)
Soman  (EXP)
sunitinib  (ISO)
tamoxifen  (EXP,ISO)
Tesaglitazar  (EXP)
testosterone  (ISO)
tetrachloromethane  (EXP,ISO)
titanium dioxide  (ISO)
toluene  (EXP)
topotecan  (EXP)
tributylstannane  (ISO)
Triptolide  (ISO)
tris(2-butoxyethyl) phosphate  (ISO)
troglitazone  (EXP,ISO)
urethane  (ISO)
valproic acid  (EXP,ISO)
vinclozolin  (EXP)
zoledronic acid  (ISO)

References

Additional References at PubMed
PMID:8889548   PMID:9356465   PMID:10587575   PMID:11467842   PMID:12042327   PMID:12477932   PMID:12832703   PMID:15316084   PMID:15976444   PMID:16502470   PMID:16809613   PMID:16885410  
PMID:16892058   PMID:17109118   PMID:17118341   PMID:17187413   PMID:17283184   PMID:17498271   PMID:17922643   PMID:18577527   PMID:18654668   PMID:19056867   PMID:19092120   PMID:19190083  
PMID:19199708   PMID:19228982   PMID:19384922   PMID:21082674   PMID:21162801   PMID:23376485   PMID:23533145   PMID:24556617   PMID:27166505   PMID:29076766   PMID:31759629  


Genomics

Comparative Map Data
Prom1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21466,989,545 - 67,094,534 (+)NCBImRatBN7.2
Rnor_6.0 Ensembl1471,533,063 - 71,637,417 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.01471,532,321 - 71,637,400 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01471,573,130 - 71,668,097 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41472,122,986 - 72,230,453 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11472,125,409 - 72,232,843 (+)NCBI
Celera1465,949,815 - 66,052,606 (+)NCBICelera
Cytogenetic Map14q21NCBI
PROM1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl415,963,076 - 16,084,378 (-)EnsemblGRCh38hg38GRCh38
GRCh38415,968,226 - 16,084,059 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh37415,969,851 - 16,085,646 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36415,578,955 - 15,686,664 (-)NCBINCBI36hg18NCBI36
Build 34415,646,125 - 15,753,835NCBI
Celera416,434,397 - 16,550,164 (-)NCBI
Cytogenetic Map4p15.32NCBI
HuRef415,319,438 - 15,435,190 (-)NCBIHuRef
CHM1_1415,967,639 - 16,083,574 (-)NCBICHM1_1
Prom1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39544,150,963 - 44,260,850 (-)NCBIGRCm39mm39
GRCm39 Ensembl544,150,962 - 44,259,374 (-)Ensembl
GRCm38543,993,621 - 44,102,047 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl543,993,620 - 44,102,032 (-)EnsemblGRCm38mm10GRCm38
MGSCv37544,384,861 - 44,492,975 (-)NCBIGRCm37mm9NCBIm37
MGSCv36544,281,870 - 44,389,929 (-)NCBImm8
Celera541,422,565 - 41,530,564 (-)NCBICelera
Cytogenetic Map5B3NCBI
Prom1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554807,961,389 - 8,059,589 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554807,955,501 - 8,059,537 (+)NCBIChiLan1.0ChiLan1.0
PROM1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.1415,702,155 - 15,816,070 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl415,702,159 - 15,815,454 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v0410,405,299 - 10,519,518 (-)NCBIMhudiblu_PPA_v0panPan3
PROM1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1364,229,487 - 64,362,346 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl364,260,685 - 64,382,009 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha366,778,870 - 66,880,110 (+)NCBI
ROS_Cfam_1.0364,707,547 - 64,840,616 (+)NCBI
UMICH_Zoey_3.1364,228,808 - 64,330,214 (+)NCBI
UNSW_CanFamBas_1.0364,432,846 - 64,534,046 (+)NCBI
UU_Cfam_GSD_1.0364,793,321 - 64,894,543 (+)NCBI
Prom1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440528558,176,590 - 58,315,536 (+)NCBI
SpeTri2.0NW_00493647711,878,261 - 12,017,228 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
PROM1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl811,215,659 - 11,317,312 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1811,215,659 - 11,331,442 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2810,866,626 - 10,987,214 (-)NCBISscrofa10.2Sscrofa10.2susScr3
PROM1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12734,093,699 - 34,243,630 (+)NCBI
ChlSab1.1 Ensembl2734,129,532 - 34,243,778 (+)Ensembl
Vero_WHO_p1.0NW_02366604780,860,464 - 80,977,347 (+)NCBI
Prom1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462475515,765,162 - 15,886,023 (+)NCBI

Position Markers
RH144231  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21467,094,216 - 67,094,488 (+)MAPPERmRatBN7.2
Rnor_6.01471,637,083 - 71,637,354NCBIRnor6.0
Rnor_5.01471,667,781 - 71,668,052UniSTSRnor5.0
RGSC_v3.41472,230,137 - 72,230,408UniSTSRGSC3.4
Celera1466,052,290 - 66,052,561UniSTS
Cytogenetic Map14q21UniSTS


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1581500Renag1Renal agenesis QTL 1kidney development trait (VT:0000527)percentage of study population developing unilateral renal agenesis during a period of time (CMO:0000940)14975643572854397Rat
631839Niddm37Non-insulin dependent diabetes mellitus QTL 373.37blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)1412680424106641756Rat
70187Pancm5Pancreatic morphology QTL 516.7pancreas mass (VT:0010144)pancreas weight to body weight ratio (CMO:0000630)143259392686191589Rat
1300154Bp189Blood pressure QTL 1893.04arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)143316331673391571Rat
2313048Bss84Bone structure and strength QTL 843.10.0001tibia strength trait (VT:1000284)tibia total energy absorbed before break (CMO:0001736)144031561085315610Rat
2313084Bss83Bone structure and strength QTL 832.90.0001tibia size trait (VT:0100001)tibia midshaft endosteal cross-sectional area (CMO:0001716)144031561085315610Rat
2313089Bss81Bone structure and strength QTL 813.40.0001body length (VT:0001256)body length, nose to rump (CMO:0000079)144031561085315610Rat
2313100Bss82Bone structure and strength QTL 8230.0001tibia size trait (VT:0100001)tibia midshaft cross-sectional area (CMO:0001717)144031561085315610Rat
70214Niddm28Non-insulin dependent diabetes mellitus QTL 284.06blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)144163756980841518Rat
631523Pia13Pristane induced arthritis QTL 133.3joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1442442731108833671Rat
1300136Rf22Renal function QTL 223.9renal blood flow trait (VT:2000006)absolute change in renal vascular resistance (CMO:0001900)1443910761105074364Rat
1549834Scl45Serum cholesterol level QTL 455.8blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)1451818462105074364Rat
9590294Uminl4Urine mineral level QTL 45.660.001urine mineral amount (VT:0015086)urine electrolyte level (CMO:0000593)1460980905105980905Rat
9589034Epfw11Epididymal fat weight QTL 1160.001epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)1460980905105980905Rat
738037Hcas6Hepatocarcinoma susceptibility QTL 62.93liver integrity trait (VT:0010547)liver nonremodeling tumorous lesion volume to total liver volume ratio (CMO:0001464)146187332388870994Rat
2317879Alcrsp27Alcohol response QTL 273.30.63response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)1461993178106993178Rat
634328Hc5Hypercalciuria QTL 52.3urine calcium amount (VT:0002985)urine calcium excretion rate (CMO:0000763)1463548095108548095Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:192
Count of miRNA genes:132
Interacting mature miRNAs:163
Transcripts:ENSRNOT00000004231
Prediction methods:Miranda, 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 3 14 15 7 9 7 70 35 30 11
Low 29 41 33 10 33 8 11 4 11 8
Below cutoff 1 1 1

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_001110137 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_021751 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008770211 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008770218 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017599349 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017599350 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017599351 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017599352 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017599353 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017599354 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017599355 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017599356 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017599357 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017599358 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017599359 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017599360 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039092361 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039092362 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039092363 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039092364 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039092365 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039092366 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039092367 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AC134757 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AF263368 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AF386758 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AY262731 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC126091 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BI286840 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CB780214 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH473963 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  DQ871262 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  EV765242 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JACYVU010000254 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSRNOT00000004231   ⟹   ENSRNOP00000004231
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1471,533,063 - 71,637,393 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000082592   ⟹   ENSRNOP00000071297
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1471,542,057 - 71,637,393 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000083701   ⟹   ENSRNOP00000069832
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1471,542,059 - 71,637,417 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000084274   ⟹   ENSRNOP00000071743
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1471,533,460 - 71,568,622 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000084322   ⟹   ENSRNOP00000068615
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1471,542,208 - 71,631,487 (+)Ensembl
RefSeq Acc Id: NM_001110137   ⟹   NP_001103607
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21466,999,156 - 67,094,533 (+)NCBI
Rnor_6.01471,542,057 - 71,637,399 (+)NCBI
Rnor_5.01471,573,130 - 71,668,097 (+)NCBI
RGSC_v3.41472,122,986 - 72,230,453 (+)RGD
Celera1465,958,787 - 66,052,606 (+)NCBI
Sequence:
RefSeq Acc Id: NM_021751   ⟹   NP_068519
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21466,990,160 - 67,094,533 (+)NCBI
Rnor_6.01471,533,063 - 71,637,399 (+)NCBI
Rnor_5.01471,573,130 - 71,668,097 (+)NCBI
RGSC_v3.41472,122,986 - 72,230,453 (+)RGD
Celera1465,949,815 - 66,052,606 (+)RGD
Sequence:
RefSeq Acc Id: XM_008770211   ⟹   XP_008768433
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21466,990,070 - 67,094,534 (+)NCBI
Rnor_6.01471,532,881 - 71,637,400 (+)NCBI
Sequence:
RefSeq Acc Id: XM_039092361   ⟹   XP_038948289
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21466,990,285 - 67,094,534 (+)NCBI
RefSeq Acc Id: XM_039092362   ⟹   XP_038948290
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21466,989,545 - 67,094,534 (+)NCBI
RefSeq Acc Id: XM_039092363   ⟹   XP_038948291
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21466,999,307 - 67,094,534 (+)NCBI
RefSeq Acc Id: XM_039092364   ⟹   XP_038948292
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21466,990,286 - 67,094,024 (+)NCBI
RefSeq Acc Id: XM_039092365   ⟹   XP_038948293
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21466,999,307 - 67,094,534 (+)NCBI
RefSeq Acc Id: XM_039092366   ⟹   XP_038948294
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21466,999,307 - 67,094,534 (+)NCBI
RefSeq Acc Id: XM_039092367   ⟹   XP_038948295
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21466,999,307 - 67,094,534 (+)NCBI
Reference Sequences
RefSeq Acc Id: NP_068519   ⟸   NM_021751
- Peptide Label: isoform 1 precursor
- UniProtKB: Q91XN5 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: NP_001103607   ⟸   NM_001110137
- Peptide Label: isoform 2 precursor
- UniProtKB: A0A0G2K044 (UniProtKB/TrEMBL),   Q7TSL4 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_008768433   ⟸   XM_008770211
- Peptide Label: isoform X1
- UniProtKB: A0A0G2JWD0 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000004231   ⟸   ENSRNOT00000004231
RefSeq Acc Id: ENSRNOP00000071297   ⟸   ENSRNOT00000082592
RefSeq Acc Id: ENSRNOP00000069832   ⟸   ENSRNOT00000083701
RefSeq Acc Id: ENSRNOP00000071743   ⟸   ENSRNOT00000084274
RefSeq Acc Id: ENSRNOP00000068615   ⟸   ENSRNOT00000084322
RefSeq Acc Id: XP_038948290   ⟸   XM_039092362
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038948289   ⟸   XM_039092361
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038948292   ⟸   XM_039092364
- Peptide Label: isoform X3
RefSeq Acc Id: XP_038948294   ⟸   XM_039092366
- Peptide Label: isoform X5
RefSeq Acc Id: XP_038948291   ⟸   XM_039092363
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038948295   ⟸   XM_039092367
- Peptide Label: isoform X6
RefSeq Acc Id: XP_038948293   ⟸   XM_039092365
- Peptide Label: isoform X4

Transcriptome

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

Promoters
RGD ID:13699352
Promoter ID:EPDNEW_R9876
Type:initiation region
Name:Prom1_1
Description:prominin 1
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_6.01471,533,067 - 71,533,127EPDNEW

Strain Variation

Strain Sequence Variants (Rnor 6.0)
ACI/EurMcwi (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)
ACI/EurMcwi (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
ACI/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
BBDP/Wor (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
BN/SsN (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
Buf/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
COP/CrCrl (MCW & UW)
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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)
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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
F344/NRrrc (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
FHH/EurMcwi (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)
FHH/EurMcwi (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
FHL/EurMcwi (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)
FHL/EurMcwi (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
GH/OmrMcwi (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)
GK/Ox (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
LE/Stm (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
LEW/Crl (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
LEW/NCrlBR (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
LH/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
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:69367 AgrOrtholog
Ensembl Genes ENSRNOG00000003098 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000004231 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOP00000068615 UniProtKB/TrEMBL
  ENSRNOP00000069832 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOP00000071297 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOP00000071743 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000004231 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOT00000082592 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOT00000083701 UniProtKB/TrEMBL
  ENSRNOT00000084274 UniProtKB/TrEMBL
  ENSRNOT00000084322 UniProtKB/TrEMBL
InterPro Prominin UniProtKB/TrEMBL
KEGG Report rno:60357 UniProtKB/TrEMBL
NCBI Gene 60357 ENTREZGENE
PANTHER Prominin UniProtKB/TrEMBL
Pfam Prominin UniProtKB/TrEMBL
PhenoGen Prom1 PhenoGen
UniProt A0A0G2JT89_RAT UniProtKB/TrEMBL
  A0A0G2JWD0 ENTREZGENE, UniProtKB/TrEMBL
  A0A0G2K044 ENTREZGENE, UniProtKB/TrEMBL
  A0JN22_RAT UniProtKB/TrEMBL
  Q09LS9_RAT UniProtKB/TrEMBL
  Q09LT0_RAT UniProtKB/TrEMBL
  Q7TSL4 ENTREZGENE, UniProtKB/TrEMBL
  Q91XN5 ENTREZGENE, UniProtKB/TrEMBL
UniProt Secondary F7FI74 UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2004-09-10 Prom1  prominin 1  Prom  prominin  Symbol and Name updated 1299863 APPROVED
2002-06-10 Prom  prominin      Name updated 70584 APPROVED

RGD Curation Notes
Note Type Note Reference
gene_domains contains four transmembrane segments and two extracellular glycosylated domains 68837