Cbln3 (cerebellin 3 precursor protein) - Rat Genome Database

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Gene: Cbln3 (cerebellin 3 precursor protein) Mus musculus
Analyze
Symbol: Cbln3
Name: cerebellin 3 precursor protein
RGD ID: 1557277
MGI Page MGI
Description: Predicted to be involved in maintenance of synapse structure. Located in extracellular space and synapse. Is expressed in several structures, including brain; genitourinary system; gut; respiratory system; and sensory organ. Orthologous to human CBLN3 (cerebellin 3 precursor).
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: cerebellin-3; precerebellin 3
RGD Orthologs
Human
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: GRCm39 - Mouse Genome Assembly GRCm39
Position:
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391456,116,377 - 56,121,713 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1456,116,370 - 56,121,849 (-)EnsemblGRCm39 Ensembl
GRCm381455,878,920 - 55,884,256 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1455,878,913 - 55,884,392 (-)EnsemblGRCm38mm10GRCm38
MGSCv371456,497,757 - 56,503,093 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361454,832,991 - 54,838,327 (-)NCBIMGSCv36mm8
Celera1453,682,705 - 53,688,041 (-)NCBICelera
Cytogenetic Map14C3NCBI
cM Map1428.19NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

Molecular Function

Phenotype Annotations     Click to see Annotation Detail View
References

References - curated
# Reference Title Reference Citation
1. MGDs mouse GO annotations MGD data from the GO Consortium
2. Analysis of the mouse transcriptome based on functional annotation of 60,770 full-length cDNAs. Okazaki Y, etal., Nature. 2002 Dec 5;420(6915):563-73.
3. Mouse MP Annotation Import Pipeline RGD automated import pipeline
4. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:8889548   PMID:10349636   PMID:10964938   PMID:11042159   PMID:11076861   PMID:11217851   PMID:12477932   PMID:15489334   PMID:16141072   PMID:16141073   PMID:16602821   PMID:16930405  
PMID:17030622   PMID:17331201   PMID:18799693   PMID:19250438   PMID:20562862   PMID:20856818   PMID:21873635   PMID:24194600   PMID:24952961   PMID:27626380   PMID:32325033   PMID:36823038  


Genomics

Comparative Map Data
Cbln3
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391456,116,377 - 56,121,713 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1456,116,370 - 56,121,849 (-)EnsemblGRCm39 Ensembl
GRCm381455,878,920 - 55,884,256 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1455,878,913 - 55,884,392 (-)EnsemblGRCm38mm10GRCm38
MGSCv371456,497,757 - 56,503,093 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361454,832,991 - 54,838,327 (-)NCBIMGSCv36mm8
Celera1453,682,705 - 53,688,041 (-)NCBICelera
Cytogenetic Map14C3NCBI
cM Map1428.19NCBI
CBLN3
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381424,426,545 - 24,429,668 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1424,426,545 - 24,430,954 (-)EnsemblGRCh38hg38GRCh38
GRCh371424,895,751 - 24,898,874 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361423,965,578 - 23,968,571 (-)NCBINCBI36Build 36hg18NCBI36
Celera144,760,374 - 4,763,367 (-)NCBICelera
Cytogenetic Map14q12NCBI
HuRef145,010,393 - 5,013,386 (-)NCBIHuRef
CHM1_11424,894,311 - 24,897,304 (-)NCBICHM1_1
T2T-CHM13v2.01418,625,275 - 18,628,398 (-)NCBIT2T-CHM13v2.0
Cbln3
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81533,331,919 - 33,334,428 (-)NCBIGRCr8
mRatBN7.21529,362,014 - 29,364,523 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1529,362,302 - 29,364,612 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1531,207,673 - 31,210,182 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01532,354,887 - 32,357,396 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01530,597,244 - 30,599,753 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01534,548,102 - 34,550,938 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1534,548,295 - 34,550,860 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01538,436,404 - 38,439,238 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41534,026,962 - 34,029,272 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera1528,936,004 - 28,938,314 (-)NCBICelera
Cytogenetic Map15p13NCBI
Cbln3
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495540935,881,075 - 35,882,268 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495540935,880,337 - 35,882,485 (+)NCBIChiLan1.0ChiLan1.0
CBLN3
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21525,781,479 - 25,785,712 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11424,998,021 - 25,000,511 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0145,200,297 - 5,206,018 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11423,326,146 - 23,329,604 (-)NCBIpanpan1.1PanPan1.1panPan2
CBLN3
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.184,399,188 - 4,402,478 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl84,400,462 - 4,401,754 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha84,320,877 - 4,324,167 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.084,510,821 - 4,514,111 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl84,510,312 - 4,513,550 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.184,200,177 - 4,203,462 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.084,262,864 - 4,266,152 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.084,525,056 - 4,528,344 (-)NCBIUU_Cfam_GSD_1.0
Cbln3
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440864036,258,571 - 36,264,046 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_004936722125,758 - 127,063 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_004936722125,758 - 127,002 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CBLN3
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl774,864,114 - 74,868,445 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1774,865,931 - 74,868,443 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2780,136,834 - 80,139,346 (+)NCBISscrofa10.2Sscrofa10.2susScr3
CBLN3
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1241,409,147 - 1,412,140 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl241,410,406 - 1,411,667 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366603613,095,412 - 13,098,662 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Cbln3
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046248208,085,705 - 8,087,053 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046248208,084,910 - 8,090,580 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Cbln3
214 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:2278
Count of miRNA genes:733
Interacting mature miRNAs:970
Transcripts:ENSMUST00000063871, ENSMUST00000172378
Prediction methods:Miranda, Rnahybrid, Targetscan
Result types:miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.


QTLs in Region (GRCm39)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1357589Kdnw2_mkidney weight 2 (mouse)Not determined1420887473121269804Mouse
1357527Epfpq1_mepididymal fat percentage QTL 1 (mouse)Not determined142106245071885801Mouse
14746973Manh76_mmandible shape 76 (mouse)142228721756287217Mouse
4142485Modor2_mmodifier of ocular retardation 2 (mouse)Not determined142492624858179769Mouse
13506929Recrq10_mrecombination rate in male meiosis QTL 10 (mouse)142792195761137449Mouse
10043886Cia49_mcollagen induced arthritis QTL 49 (mouse)Not determined142999699463997133Mouse
27226774Tibl15_mtibia length 15, 10 week (mouse)143032195787937436Mouse
1300909Ath13_matherosclerosis 13 (mouse)Not determined143033525064335381Mouse
1300998Cia17_mcollagen induced arthritis 17 (mouse)Not determined143033525064335381Mouse
27226737Metcl12_mmetatarsal-calcaneal length 12, 10 week (mouse)143322195759437449Mouse
1300625Cosz2_mcocaine seizure 2 (mouse)Not determined143504579768785736Mouse
10043887Cia50_mcollagen induced arthritis QTL 50 (mouse)Not determined143743018571430320Mouse
4142419Tgq26_mtriglyceride QTL 26 (mouse)Not determined4033731974337319Mouse
1301777Bglq15_mbody growth late QTL 15 (mouse)Not determined144296241676962593Mouse
1301424Skull21_mskull morphology 21 (mouse)Not determined144296241676962593Mouse
1300805Mors3_mmodifier of obesity related sterility 3 (mouse)Not determined144303727077037418Mouse
1301091Bbaa21_mB.burgdorferi-associated arthritis 21 (mouse)Not determined144306584777066045Mouse
4141400Nilac8_mnicotine induced locomotor activity 8 (mouse)Not determined144306584777066045Mouse
4141484Hcbip1_mhexachlorobenzene induced porphyria 1 (mouse)Not determined4733525059962593Mouse
1300605El5_mepilepsy 5 (mouse)Not determined144945542583455556Mouse
4142364Pbwg18_mpostnatal body weight growth 18 (mouse)Not determined145228198486282125Mouse
1301489Lbm10_mlean body mass 10 (mouse)Not determined145376129687761529Mouse
12880432Fgf23lq3_mFGF23 serum level QTL 3 (mouse)145393744087937440Mouse
10043889Cia52_mcollagen induced arthritis QTL 52 (mouse)Not determined145608238190082509Mouse

Markers in Region
Cbln3  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm381455,882,800 - 55,882,992UniSTSGRCm38
MGSCv371456,501,637 - 56,501,829UniSTSGRCm37
Celera1453,686,585 - 53,686,777UniSTS
Cytogenetic Map14C3UniSTS
cM Map1422.5UniSTS


Expression


Sequence


Reference Sequences
RefSeq Acc Id: ENSMUST00000063871   ⟹   ENSMUSP00000070494
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1456,116,370 - 56,121,849 (-)Ensembl
GRCm38.p6 Ensembl1455,878,913 - 55,884,392 (-)Ensembl
RefSeq Acc Id: ENSMUST00000172378   ⟹   ENSMUSP00000127798
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1456,119,518 - 56,121,689 (-)Ensembl
GRCm38.p6 Ensembl1455,882,061 - 55,884,232 (-)Ensembl
RefSeq Acc Id: NM_019820   ⟹   NP_062794
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391456,116,377 - 56,121,713 (-)NCBI
GRCm381455,878,920 - 55,884,256 (-)ENTREZGENE
MGSCv371456,497,757 - 56,503,093 (-)RGD
Celera1453,682,705 - 53,688,041 (-)RGD
cM Map14 ENTREZGENE
Sequence:
Reference Protein Sequences
RefSeq Acc Id: NP_062794   ⟸   NM_019820
- Peptide Label: precursor
- UniProtKB: Q9JHG0 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: ENSMUSP00000127798   ⟸   ENSMUST00000172378
RefSeq Acc Id: ENSMUSP00000070494   ⟸   ENSMUST00000063871
Protein Domains
C1q

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q9JHG0-F1-model_v2 AlphaFold Q9JHG0 1-197 view protein structure

Promoters
RGD ID:8682484
Promoter ID:EPDNEW_M19273
Type:initiation region
Name:Cbln3_1
Description:Mus musculus cerebellin 3 precursor protein , mRNA.
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm381455,884,211 - 55,884,271EPDNEW
RGD ID:6824753
Promoter ID:MM_KWN:17000
Type:CpG-Island
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:3T3L1_Day0,   3T3L1_Day1,   3T3L1_Day3,   Brain,   ES_Cell,   Kidney,   Liver,   MEF_B4
Transcripts:NM_019820
Position:
Mouse AssemblyChrPosition (strand)Source
MGSCv361456,503,041 - 56,503,997 (-)MPROMDB

Additional Information

Database Acc Id Source(s)
AGR Gene MGI:1889286 AgrOrtholog
Ensembl Genes ENSMUSG00000040380 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSMUST00000063871 ENTREZGENE
  ENSMUST00000063871.13 UniProtKB/Swiss-Prot
  ENSMUST00000172378.2 UniProtKB/Swiss-Prot
Gene3D-CATH 2.60.120.40 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
InterPro C1q_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Tumour_necrosis_fac-like_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report mmu:56410 UniProtKB/Swiss-Prot
MGD MGI:1889286 ENTREZGENE
NCBI Gene 56410 ENTREZGENE
PANTHER CEREBELLIN-3 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  CEREBELLIN-RELATED UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam C1q UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Cbln3 PhenoGen
PRINTS COMPLEMNTC1Q UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PROSITE C1Q UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
SMART C1Q UniProtKB/Swiss-Prot
Superfamily-SCOP SSF49842 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt CBLN3_MOUSE UniProtKB/Swiss-Prot
  Q8BNN6_MOUSE UniProtKB/TrEMBL
  Q9JHG0 ENTREZGENE