Fam3b (FAM3 metabolism regulating signaling molecule B) - Rat Genome Database

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Gene: Fam3b (FAM3 metabolism regulating signaling molecule B) Rattus norvegicus
Analyze
Symbol: Fam3b
Name: FAM3 metabolism regulating signaling molecule B
RGD ID: 1311662
Description: Predicted to be involved in insulin secretion. Predicted to be located in membrane. Predicted to be active in extracellular space. Orthologous to human FAM3B (FAM3 metabolism regulating signaling molecule B); INTERACTS WITH 17beta-estradiol; 17beta-estradiol 3-benzoate; 3,3',5,5'-tetrabromobisphenol A.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: cytokine-like protein 2-21; family with sequence similarity 3, member B; LOC304050; RGD1311662; similar to open reading frame 9
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21136,831,532 - 36,863,902 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1136,831,532 - 36,869,713 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1145,480,008 - 45,512,453 (-)NCBIRnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.01138,151,386 - 38,183,828 (-)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.01137,311,313 - 37,343,761 (-)NCBIRnor_WKY
Rnor_6.01137,922,308 - 37,993,279 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1137,922,292 - 37,993,207 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01141,429,763 - 41,503,454 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41137,470,404 - 37,505,705 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11137,528,141 - 37,558,745 (-)NCBI
Celera1136,718,301 - 36,749,239 (-)NCBICelera
Cytogenetic Map11q12NCBI
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
insulin secretion  (IBA,ISO)

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. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
3. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
4. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:12160727   PMID:19199708   PMID:23376485   PMID:28536423  


Genomics

Comparative Map Data
Fam3b
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21136,831,532 - 36,863,902 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1136,831,532 - 36,869,713 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1145,480,008 - 45,512,453 (-)NCBIRnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.01138,151,386 - 38,183,828 (-)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.01137,311,313 - 37,343,761 (-)NCBIRnor_WKY
Rnor_6.01137,922,308 - 37,993,279 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1137,922,292 - 37,993,207 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01141,429,763 - 41,503,454 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41137,470,404 - 37,505,705 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11137,528,141 - 37,558,745 (-)NCBI
Celera1136,718,301 - 36,749,239 (-)NCBICelera
Cytogenetic Map11q12NCBI
FAM3B
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh382141,304,242 - 41,357,727 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p13 Ensembl2141,304,212 - 41,357,727 (+)EnsemblGRCh38hg38GRCh38
GRCh372142,688,728 - 42,729,654 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 362141,610,531 - 41,651,524 (+)NCBINCBI36Build 36hg18NCBI36
Celera2127,886,894 - 27,927,901 (+)NCBICelera
Cytogenetic Map21q22.3NCBI
HuRef2128,157,559 - 28,198,557 (+)NCBIHuRef
CHM1_12142,249,456 - 42,290,457 (+)NCBICHM1_1
T2T-CHM13v2.02139,692,606 - 39,746,338 (+)NCBIT2T-CHM13v2.0
Fam3b
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391697,272,165 - 97,306,136 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1697,272,165 - 97,316,016 (-)EnsemblGRCm39 Ensembl
GRCm381697,470,965 - 97,504,936 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1697,470,965 - 97,514,816 (-)EnsemblGRCm38mm10GRCm38
MGSCv371697,692,693 - 97,726,543 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361697,575,996 - 97,659,852 (-)NCBIMGSCv36mm8
Celera1698,531,405 - 98,565,114 (-)NCBICelera
Cytogenetic Map16C4NCBI
cM Map1657.47NCBI
Fam3b
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495540740,914,239 - 40,932,177 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495540740,914,408 - 40,939,850 (-)NCBIChiLan1.0ChiLan1.0
FAM3B
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan12132,251,107 - 32,292,869 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v02127,650,185 - 27,692,249 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.12140,979,149 - 41,020,089 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl2140,979,149 - 41,020,089 (+)Ensemblpanpan1.1panPan2
FAM3B
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.13135,805,981 - 35,844,258 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl3135,806,217 - 35,844,263 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha3134,961,227 - 34,999,135 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.03135,323,709 - 35,361,728 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl3135,323,758 - 35,361,733 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.13135,219,538 - 35,257,553 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.03135,197,593 - 35,235,594 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.03135,691,726 - 35,729,740 (+)NCBIUU_Cfam_GSD_1.0
Fam3b
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440497135,149,735 - 35,178,093 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365002,289,687 - 2,318,977 (+)EnsemblSpeTri2.0
SpeTri2.0NW_0049365002,289,795 - 2,317,616 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
FAM3B
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl13204,752,196 - 204,796,777 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.113204,746,338 - 204,796,792 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.213215,061,989 - 215,072,431 (-)NCBISscrofa10.2Sscrofa10.2susScr3
FAM3B
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1285,211,126 - 85,277,034 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl285,223,553 - 85,277,839 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366605413,075,832 - 13,129,760 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Fam3b
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462474528,639,087 - 28,659,627 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462474528,638,914 - 28,658,930 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Fam3b
114 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:39
Count of miRNA genes:35
Interacting mature miRNAs:39
Transcripts:ENSRNOT00000002683
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 (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1300147Bp187Blood pressure QTL 1873.67arterial blood pressure trait (VT:2000000)blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)11169446234Rat
1558659Tescar1Testicular tumor resistance QTL 13.9testis integrity trait (VT:0010572)percentage of study population developing testis tumors during a period of time (CMO:0001261)11104193166113562Rat
1641927Alcrsp10Alcohol response QTL 10alcohol metabolism trait (VT:0015089)blood ethanol level (CMO:0000535)11843667453436674Rat
724517Uae18Urinary albumin excretion QTL 183.7urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)111647204744285911Rat
724554Iddm17Insulin dependent diabetes mellitus QTL 170.001blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)111897620886241447Rat
10058952Gmadr6Adrenal mass QTL 62.290.0072adrenal gland mass (VT:0010420)both adrenal glands wet weight to body weight ratio (CMO:0002411)112295940367959403Rat
8694376Bw156Body weight QTL 1562.250.001body lean mass (VT:0010483)lean tissue morphological measurement (CMO:0002184)112328045668280456Rat
9590313Scort20Serum corticosterone level QTL 206.510.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)112328045668280456Rat
9589032Epfw10Epididymal fat weight QTL 109.290.001epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)112328045668280456Rat
8694424Bw162Body weight QTL 1623.80.001body lean mass (VT:0010483)lean tissue morphological measurement (CMO:0002184)112328045668280456Rat
724563Uae10Urinary albumin excretion QTL 106urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)112767241082846715Rat
1300130Rf20Renal function QTL 204.44kidney glomerulus integrity trait (VT:0010546)kidney glomerulus diameter (CMO:0001166)112952841860324829Rat
1300110Stl7Serum triglyceride level QTL 74.64blood triglyceride amount (VT:0002644)plasma triglyceride level (CMO:0000548)112952841882566702Rat
2298551Neuinf10Neuroinflammation QTL 103.7nervous system integrity trait (VT:0010566)spinal cord beta-2 microglobulin mRNA level (CMO:0002125)113123913478851519Rat
70180BpQTLcluster10Blood pressure QTL cluster 103.19arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)113491804179918041Rat

Markers in Region
RH134651  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21136,830,892 - 36,831,112 (+)MAPPERmRatBN7.2
Rnor_6.01137,922,375 - 37,922,594NCBIRnor6.0
Rnor_5.01141,429,830 - 41,430,049UniSTSRnor5.0
RGSC_v3.41137,469,764 - 37,469,983UniSTSRGSC3.4
Celera1136,717,660 - 36,717,879UniSTS
RH 3.4 Map11268.8UniSTS
Cytogenetic Map11q12UniSTS


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 3 10
Low 9 4 8 1 1 25 31 1 1
Below cutoff 30 51 39 11 39 7 10 67 10 6 7

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000002683   ⟹   ENSRNOP00000002683
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1136,831,532 - 36,863,902 (-)Ensembl
Rnor_6.0 Ensembl1137,923,015 - 37,993,207 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000077050   ⟹   ENSRNOP00000067982
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1136,831,532 - 36,869,713 (-)Ensembl
Rnor_6.0 Ensembl1137,922,308 - 37,993,204 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000091614   ⟹   ENSRNOP00000075388
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1136,831,532 - 36,863,806 (-)Ensembl
Rnor_6.0 Ensembl1137,922,292 - 37,993,207 (-)Ensembl
RefSeq Acc Id: NM_001107102   ⟹   NP_001100572
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21136,831,532 - 36,863,902 (-)NCBI
Rnor_6.01137,923,015 - 37,993,207 (-)NCBI
Rnor_5.01141,429,763 - 41,503,454 (-)NCBI
RGSC_v3.41137,470,404 - 37,505,705 (-)RGD
Celera1136,718,301 - 36,749,239 (-)RGD
Sequence:
Protein Sequences
Protein RefSeqs NP_001100572 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EDM10968 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: NP_001100572   ⟸   NM_001107102
- UniProtKB: D4A1V2 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000067982   ⟸   ENSRNOT00000077050
RefSeq Acc Id: ENSRNOP00000002683   ⟸   ENSRNOT00000002683
RefSeq Acc Id: ENSRNOP00000075388   ⟸   ENSRNOT00000091614
Protein Domains
ILEI/PANDER

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-A0A096MJ41-F1-model_v2 AlphaFold A0A096MJ41 1-235 view protein structure

Transcriptome

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

Promoters
RGD ID:13698099
Promoter ID:EPDNEW_R8617
Type:initiation region
Name:Fam3b_1
Description:family with sequence similarity 3, member B
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_6.01137,993,188 - 37,993,248EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1311662 AgrOrtholog
BioCyc Gene G2FUF-21684 BioCyc
Ensembl Genes ENSRNOG00000001962 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000002683 ENTREZGENE
  ENSRNOP00000002683.6 UniProtKB/TrEMBL
  ENSRNOP00000067982.2 UniProtKB/TrEMBL
  ENSRNOP00000075388.2 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000002683 ENTREZGENE
  ENSRNOT00000002683.7 UniProtKB/TrEMBL
  ENSRNOT00000077050.3 UniProtKB/TrEMBL
  ENSRNOT00000091614.2 UniProtKB/TrEMBL
InterPro FAM3 UniProtKB/TrEMBL
  ILEI/PANDER_dom UniProtKB/TrEMBL
NCBI Gene 304050 ENTREZGENE
PANTHER PTHR14592 UniProtKB/TrEMBL
  PTHR14592:SF2 UniProtKB/TrEMBL
Pfam ILEI UniProtKB/TrEMBL
PhenoGen Fam3b PhenoGen
UniProt A0A096MJ41_RAT UniProtKB/TrEMBL
  A0A0G2KAG4_RAT UniProtKB/TrEMBL
  D4A1V2 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2019-09-30 Fam3b  FAM3 metabolism regulating signaling molecule B  Fam3b  family with sequence similarity 3, member B  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2009-10-22 Fam3b  family with sequence similarity 3, member B  FAM3B  family with sequence similarity 3, member B  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-03-07 FAM3B  family with sequence similarity 3, member B  RGD1311662_predicted  similar to open reading frame 9  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-03-30 RGD1311662_predicted  similar to open reading frame 9  Fam3b_predicted  family with sequence similarity 3, member B (predicted)  Symbol and Name updated 1299863 APPROVED
2005-01-12 Fam3b_predicted  family with sequence similarity 3, member B (predicted)      Symbol and Name status set to approved 70820 APPROVED