Cubn (cubilin) - Rat Genome Database

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Gene: Cubn (cubilin) Rattus norvegicus
Analyze
Symbol: Cubn
Name: cubilin
RGD ID: 68355
Description: Enables several functions, including cargo receptor activity; hemoglobin binding activity; and identical protein binding activity. Involved in several processes, including cobalamin catabolic process; cobalamin transport; and endocytic hemoglobin import into cell. Located in several cellular components, including brush border membrane; clathrin-coated pit; and cytoplasmic vesicle. Part of receptor complex. Orthologous to human CUBN (cubilin); INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 2,3,7,8-Tetrachlorodibenzofuran; 3,3',4,4',5-pentachlorobiphenyl.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: 460 kDa receptor; cubilin (intrinsic factor-cobalamin receptor); glycoprotein 280; GP280; IFCR; intrinsic factor-cobalamin receptor; intrinsic factor-vitamin B12 receptor; MGA1
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Allele / Splice: Cubnem1Mcwi  
Genetic Models: SS-Cubnem1Mcwi
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21776,385,046 - 76,593,133 (-)NCBImRatBN7.2
mRatBN7.2 Ensembl1776,385,060 - 76,593,231 (-)Ensembl
Rnor_6.01780,584,921 - 80,807,181 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1780,584,878 - 80,807,243 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01782,205,509 - 82,425,565 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41787,545,893 - 87,772,079 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11787,556,725 - 87,782,912 (-)NCBI
Celera1775,753,959 - 75,962,017 (-)NCBICelera
Cytogenetic Map17q12.3NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. Interactions of cubilin with megalin and the product of the amnionless gene (AMN): effect on its stability. Ahuja R, etal., Biochem J. 2008 Mar 1;410(2):301-8.
2. Mutations in CUBN, encoding the intrinsic factor-vitamin B12 receptor, cubilin, cause hereditary megaloblastic anaemia 1. Aminoff M, etal., Nat Genet 1999 Mar;21(3):309-13.
3. Structural basis for receptor recognition of vitamin-B(12)-intrinsic factor complexes. Andersen CB, etal., Nature. 2010 Mar 18;464(7287):445-8. doi: 10.1038/nature08874.
4. Expression and role of cubilin in the internalization of nutrients during the peri-implantation development of the rodent embryo. Assemat E, etal., Biol Reprod. 2005 May;72(5):1079-86. Epub 2004 Dec 22.
5. Sichuan da xue xue bao. Yi xue ban = Journal of Sichuan University. Medical science edition Feng M, etal., Sichuan Da Xue Xue Bao Yi Xue Ban. 2006 Sep;37(5):738-41.
6. The functional cobalamin (vitamin B12)-intrinsic factor receptor is a novel complex of cubilin and amnionless. Fyfe JC, etal., Blood. 2004 Mar 1;103(5):1573-9. Epub 2003 Oct 23.
7. 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.
8. Renal uptake of myoglobin is mediated by the endocytic receptors megalin and cubilin. Gburek J, etal., Am J Physiol Renal Physiol 2003 Sep;285(3):F451-8. Epub 2003 Apr 29.
9. Megalin and cubilin are endocytic receptors involved in renal clearance of hemoglobin. Gburek J, etal., J Am Soc Nephrol. 2002 Feb;13(2):423-30.
10. Rat ISS GO annotations from GOA human gene data--August 2006 GOA data from the GO Consortium
11. Immunocytochemical analysis of cubilin-mediated endocytosis of high density lipoproteins (HDL) in epithelial cells of the rat visceral yolk sac. Ishida T, etal., Cell Tissue Res. 2004 Dec;318(3):533-43. Epub 2004 Oct 2.
12. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
13. The intrinsic factor-vitamin B12 receptor and target of teratogenic antibodies is a megalin-binding peripheral membrane protein with homology to developmental proteins. Moestrup SK, etal., J Biol Chem 1998 Feb 27;273(9):5235-42.
14. Electronic Transfer of LocusLink and RefSeq Data NCBI rat LocusLink and RefSeq merged data July 26, 2002
15. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
16. GOA pipeline RGD automated data pipeline
17. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
18. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
19. Cubilin and megalin co-localize in the neonatal inner ear. Tauris J, etal., Audiol Neurootol. 2009;14(4):267-78. doi: 10.1159/000199446. Epub 2009 Feb 6.
20. Tentative Sequence Identification Numbers Tentative Sequence Data IDs. TIGR Gene Index, Rat Data
21. Cubilin and megalin expression and their interaction in the rat intestine: effect of thyroidectomy. Yammani RR, etal., Am J Physiol Endocrinol Metab 2001 Nov;281(5):E900-7.
22. Identification and characterization of two distinct ligand binding regions of cubilin. Yammani RR, etal., J Biol Chem 2001 Nov 30;276(48):44777-84.
Additional References at PubMed
PMID:6321516   PMID:9153271   PMID:9691015   PMID:10400683   PMID:10552972   PMID:10766831   PMID:10811843   PMID:11856751   PMID:12815097   PMID:15286052   PMID:15342463   PMID:15976000  
PMID:16027047   PMID:17442257   PMID:17453355   PMID:19056867   PMID:21082674   PMID:22337902   PMID:23012479   PMID:23376485   PMID:23533145   PMID:24122887   PMID:26025362   PMID:26173747  
PMID:33510115  


Genomics

Comparative Map Data
Cubn
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21776,385,046 - 76,593,133 (-)NCBImRatBN7.2
mRatBN7.2 Ensembl1776,385,060 - 76,593,231 (-)Ensembl
Rnor_6.01780,584,921 - 80,807,181 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1780,584,878 - 80,807,243 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01782,205,509 - 82,425,565 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41787,545,893 - 87,772,079 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11787,556,725 - 87,782,912 (-)NCBI
Celera1775,753,959 - 75,962,017 (-)NCBICelera
Cytogenetic Map17q12.3NCBI
CUBN
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381016,823,966 - 17,129,811 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p13 Ensembl1016,823,966 - 17,129,811 (-)EnsemblGRCh38hg38GRCh38
GRCh371016,865,965 - 17,171,810 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361016,905,971 - 17,211,822 (-)NCBINCBI36hg18NCBI36
Build 341016,906,543 - 17,211,796NCBI
Celera1016,799,178 - 17,105,066 (-)NCBI
Cytogenetic Map10p13NCBI
HuRef1016,779,758 - 17,084,998 (-)NCBIHuRef
CHM1_11016,866,152 - 17,171,970 (-)NCBICHM1_1
T2T-CHM13v2.01016,842,423 - 17,148,343 (-)NCBI
Cubn
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39213,281,149 - 13,496,687 (-)NCBIGRCm39mm39
GRCm39 Ensembl213,281,149 - 13,496,624 (-)Ensembl
GRCm38213,276,338 - 13,491,876 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl213,276,338 - 13,491,813 (-)EnsemblGRCm38mm10GRCm38
MGSCv37213,197,965 - 13,413,503 (-)NCBIGRCm37mm9NCBIm37
MGSCv36213,194,189 - 13,409,729 (-)NCBImm8
Celera213,186,219 - 13,402,130 (-)NCBICelera
Cytogenetic Map2A1NCBI
cM Map29.86NCBI
Cubn
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495542910,788,959 - 11,038,845 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495542910,789,674 - 11,038,297 (+)NCBIChiLan1.0ChiLan1.0
CUBN
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.11017,415,551 - 17,719,126 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1017,415,551 - 17,719,129 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v01017,141,464 - 17,446,867 (-)NCBIMhudiblu_PPA_v0panPan3
CUBN
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1219,784,125 - 20,041,840 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl219,784,198 - 20,041,839 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha216,887,230 - 17,151,382 (+)NCBI
ROS_Cfam_1.0220,075,720 - 20,333,544 (+)NCBI
ROS_Cfam_1.0 Ensembl220,075,720 - 20,333,543 (+)Ensembl
UMICH_Zoey_3.1217,278,052 - 17,541,754 (+)NCBI
UNSW_CanFamBas_1.0218,116,485 - 18,374,283 (+)NCBI
UU_Cfam_GSD_1.0218,734,135 - 18,999,935 (+)NCBI
Cubn
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440934417,550,256 - 17,808,034 (-)NCBI
SpeTri2.0NW_00493652010,140,784 - 10,410,082 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CUBN
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1043,102,946 - 43,414,758 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11043,102,931 - 43,414,692 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21047,746,354 - 48,023,009 (-)NCBISscrofa10.2Sscrofa10.2susScr3
CUBN
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1916,774,644 - 17,079,776 (-)NCBIChlSab1.1chlSab2
ChlSab1.1 Ensembl916,774,757 - 17,079,681 (-)EnsemblChlSab1.1chlSab2
Vero_WHO_p1.0NW_02366605122,409,233 - 22,718,741 (-)NCBIVero_WHO_p1.0
Cubn
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462479610,728,983 - 10,988,361 (+)EnsemblHetGla_female_1.0hetGla2
HetGla 1.0NW_00462479610,728,853 - 10,987,292 (+)NCBIHetGla_female_1.0hetGla2

Position Markers
RH128210  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21776,385,189 - 76,385,376 (+)MAPPERmRatBN7.2
Rnor_6.01780,585,051 - 80,585,237NCBIRnor6.0
Rnor_5.01782,205,639 - 82,205,825UniSTSRnor5.0
RGSC_v3.41787,546,023 - 87,546,209UniSTSRGSC3.4
Celera1775,754,089 - 75,754,275UniSTS
RH 3.4 Map17774.0UniSTS
Cytogenetic Map17q12.3UniSTS
BM387042  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21776,583,018 - 76,583,828 (+)MAPPERmRatBN7.2
Rnor_6.01780,797,136 - 80,797,945NCBIRnor6.0
Rnor_5.01782,415,520 - 82,416,329UniSTSRnor5.0
RGSC_v3.41787,762,034 - 87,762,843UniSTSRGSC3.4
Celera1775,951,986 - 75,952,795UniSTS
RH 3.4 Map17807.2UniSTS
Cytogenetic Map17q12.3UniSTS
RH124704  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21776,385,143 - 76,385,523 (+)MAPPERmRatBN7.2
Rnor_6.01780,585,005 - 80,585,384NCBIRnor6.0
Rnor_5.01782,205,593 - 82,205,972UniSTSRnor5.0
RGSC_v3.41787,545,977 - 87,546,356UniSTSRGSC3.4
Celera1775,754,043 - 75,754,422UniSTS
Cytogenetic Map17q12.3UniSTS


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


Genetic Models
This gene Cubn is modified in the following models/strains
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:826
Count of miRNA genes:293
Interacting mature miRNAs:376
Transcripts:ENSRNOT00000040052
Prediction methods:Microtar, Miranda, Pita, 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.


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 29
Low 1 2 9 3 11 3 1 1 38 4 39 11 1
Below cutoff 40 35 25 8 25 7 9 36 2 2 7

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000040052   ⟹   ENSRNOP00000048477
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1776,385,060 - 76,593,231 (-)Ensembl
Rnor_6.0 Ensembl1780,585,303 - 80,807,181 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000090064   ⟹   ENSRNOP00000075097
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1776,385,060 - 76,593,231 (-)Ensembl
Rnor_6.0 Ensembl1780,584,878 - 80,807,243 (-)Ensembl
RefSeq Acc Id: NM_053332   ⟹   NP_445784
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21776,385,046 - 76,593,133 (-)NCBI
Rnor_6.01780,584,921 - 80,807,181 (-)NCBI
Rnor_5.01782,205,509 - 82,425,565 (-)NCBI
RGSC_v3.41787,545,893 - 87,772,079 (-)RGD
Celera1775,753,959 - 75,962,017 (-)RGD
Sequence:
Protein Sequences
Protein RefSeqs NP_445784 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAC71661 (Get FASTA)   NCBI Sequence Viewer  
  EDL78717 (Get FASTA)   NCBI Sequence Viewer  
  EDL78718 (Get FASTA)   NCBI Sequence Viewer  
  O70244 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: NP_445784   ⟸   NM_053332
- Peptide Label: precursor
- Sequence:
RefSeq Acc Id: ENSRNOP00000075097   ⟸   ENSRNOT00000090064
RefSeq Acc Id: ENSRNOP00000048477   ⟸   ENSRNOT00000040052
Protein Domains
CUB   EGF-like

Transcriptome

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

Promoters
RGD ID:13700594
Promoter ID:EPDNEW_R11118
Type:initiation region
Name:Cubn_1
Description:cubilin
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_6.01780,807,226 - 80,807,286EPDNEW

Strain Variation

Strain Sequence Variants (mRatBN7.2)
ACI/EurMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
ACI/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN-Lx/CubMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/NHsdMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/NHsdMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/SsN (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BUF/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BXH2/CubMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BXH3/CubMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
DA/OlaHsd (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/DuCrl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/NCrl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FHH/EurMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FXLE16/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FXLE18/Stm (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
GK/FarMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB10/IpcvMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB2/IpcvMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB20/IpcvMcwi (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB31/IpcvMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB4/IpcvMcwi (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LE/Stm (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEW/Crl (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF10A/StmMcwi (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF11/Stm (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1A/Stm (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1C/Stm (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF2B/Stm (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF3/Stm (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF4/Stm (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LH/MavRrrcAek (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LL/MavRrrcAek (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LN/MavRrrcAek (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/N (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/NRrrcMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
MR/N (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
MWF/Hsd (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
PVG/Seac (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SHR/OlalpcvMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SHRSP/A3NCrl (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SR/JrHsd (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SS/JrHsdMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WAG/RijCrl (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/N (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/NCrl (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WN/N (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:68355 AgrOrtholog
BIND 133316
BioCyc Gene G2FUF-8611 BioCyc
Ensembl Genes ENSRNOG00000029047 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000048477.5 UniProtKB/TrEMBL
  ENSRNOP00000075097 ENTREZGENE
  ENSRNOP00000075097.2 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000040052.5 UniProtKB/TrEMBL
  ENSRNOT00000090064 ENTREZGENE
  ENSRNOT00000090064.2 UniProtKB/TrEMBL
Gene3D-CATH 2.60.120.290 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
InterPro CUB_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Cubilin UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  EGF-like_Ca-bd_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  EGF-like_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  EGF-type_Asp/Asn_hydroxyl_site UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  EGF_Ca-bd_CS UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  EGF_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Sperma_CUB_dom_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:80848 UniProtKB/Swiss-Prot
NCBI Gene 80848 ENTREZGENE
PANTHER PTHR45656:SF11 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam CUB UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  EGF UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  EGF_3 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  EGF_CA UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Cubn PhenoGen
PROSITE ASX_HYDROXYL UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  CUB UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  EGF_1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  EGF_2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  EGF_3 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  EGF_CA UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
SMART CUB UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  EGF UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  EGF_CA UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF49854 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
TIGR TC218981
UniProt A0A0G2K9R4_RAT UniProtKB/TrEMBL
  CUBN_RAT UniProtKB/Swiss-Prot
  F1LNU2_RAT UniProtKB/TrEMBL
  O70244 ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2002-06-10 Cubn  cubilin       Name updated 70584 APPROVED

RGD Curation Notes
Note Type Note Reference
gene_disease mutations in gene cause hereditary megaloblastic anaemia 1 61796
gene_domains NH2 terminal fragment comprised of 110 amino-acid residues followed by 8 epidermal growth factor (EGF)-like repeats and 27 CUB domains 628443
gene_expression expressed in the apical membranes of epithelial cells 61796
gene_expression expressed in the apical membranes of epithelial cells 70244
gene_function receptor for intrinsic factor-vitamin B12 complexes 61796
gene_physical_interaction binds to intrinsic factor (IF)-cobalamin (cbl, vitamin B12) complex to promote the transportation of cobalamin 628443
gene_process facilitates vitamin B12 uptake (cyanocobalamin) 61796
gene_process undergoes degradation in the intestine losing the NH2 terminal which impaires its binding affinity to megalin, the 230 kDa form may be a major intermediate during the degradation of the 460 kDa form 628443
gene_process involved in renal reabsorption of myoglobin 1299150
gene_regulation poor expression due to thyroixine defficiency results in decreased uptake and transport of cobalamin 628443