Fam47e (family with sequence similarity 47, member E) - Rat Genome Database

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Gene: Fam47e (family with sequence similarity 47, member E) Rattus norvegicus
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Symbol: Fam47e
Name: family with sequence similarity 47, member E
RGD ID: 1585459
Description: Predicted to enable enzyme activator activity. Predicted to be involved in protein localization to chromatin and transcription initiation-coupled chromatin remodeling. Predicted to be located in chromatin; cytoplasm; and nucleus. Orthologous to human FAM47E (family with sequence similarity 47 member E); INTERACTS WITH Cuprizon; 17beta-estradiol (ortholog); 2,3,7,8-tetrachlorodibenzodioxine (ortholog).
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: Fam47e-ps1; family with sequence similarity 47, member E, pseudogene 1; hypothetical protein LOC686140; LOC686140
RGD Orthologs
Human
Mouse
Bonobo
Dog
Squirrel
Pig
Green Monkey
Black Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81415,769,441 - 15,805,911 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1415,769,050 - 15,806,061 (-)EnsemblGRCr8
mRatBN7.21415,485,537 - 15,521,599 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1415,485,127 - 15,521,775 (-)EnsemblmRatBN7.2
Rnor_6.01416,991,496 - 17,027,563 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01416,905,051 - 16,943,299 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.41417,047,030 - 17,082,845 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1414,880,396 - 14,916,360 (-)NCBICelera
Cytogenetic Map14p22NCBI
JBrowse:




Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component
chromatin  (IEA,ISO)
cytoplasm  (IEA,ISO)
cytosol  (IEA,ISO)
nucleoplasm  (IEA,ISO)
nucleus  (IEA,ISO)

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:25231882   PMID:33376131  


Genomics

Comparative Map Data
Fam47e
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81415,769,441 - 15,805,911 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1415,769,050 - 15,806,061 (-)EnsemblGRCr8
mRatBN7.21415,485,537 - 15,521,599 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1415,485,127 - 15,521,775 (-)EnsemblmRatBN7.2
Rnor_6.01416,991,496 - 17,027,563 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01416,905,051 - 16,943,299 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.41417,047,030 - 17,082,845 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1414,880,396 - 14,916,360 (-)NCBICelera
Cytogenetic Map14p22NCBI
FAM47E
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38476,214,040 - 76,283,783 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl476,214,040 - 76,284,294 (+)Ensemblhg38GRCh38
GRCh37477,135,193 - 77,204,936 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36477,391,903 - 77,423,960 (+)NCBIBuild 36Build 36hg18NCBI36
Celera474,472,978 - 74,505,062 (+)NCBICelera
Cytogenetic Map4q21.1NCBI
HuRef472,887,211 - 72,956,976 (+)NCBIHuRef
CHM1_1477,111,548 - 77,181,407 (+)NCBICHM1_1
T2T-CHM13v2.0479,554,708 - 79,624,480 (+)NCBIT2T-CHM13v2.0
Fam47e
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39592,702,823 - 92,739,144 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl592,702,928 - 92,739,138 (+)EnsemblGRCm39 EnsemblGRCm39
GRCm38592,554,960 - 92,591,285 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl592,555,069 - 92,591,279 (+)Ensemblmm10GRCm38
MGSCv37592,984,114 - 93,020,310 (+)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv36593,646,744 - 93,665,940 (+)NCBIMGSCv36mm8
Celera590,696,596 - 90,732,771 (+)NCBICelera
Cytogenetic Map5E2NCBI
cM Map547.09NCBI
FAM47E
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2353,781,131 - 53,817,012 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1453,973,748 - 54,010,468 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0447,916,493 - 47,949,816 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1453,756,261 - 53,788,614 (-)NCBIPanPan1.1PanPan1.1panPan2
PanPan1.1 Ensembl453,756,619 - 53,826,800 (-)EnsemblpanPan2panpan1.1
FAM47E
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.132904,947 - 930,985 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha3240,949,109 - 40,979,040 (-)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.032929,644 - 950,458 (+)NCBIROS_Cfam_1.0ROS_Cfam_1.0
UMICH_Zoey_3.132926,647 - 948,318 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.032880,804 - 902,473 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.03239,273,423 - 39,295,054 (-)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
LOC101969524
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440528511,219,483 - 11,243,495 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_004936676263,704 - 287,761 (+)EnsemblSpeTri2.0 Ensembl
SpeTri2.0NW_004936676263,974 - 287,742 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
FAM47E
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl871,940,299 - 71,961,432 (+)EnsemblsusScr11Sscrofa11.1
Sscrofa11.1871,940,297 - 71,965,843 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2876,135,270 - 76,159,999 (+)NCBISscrofa10.2Sscrofa10.2susScr3
FAM47E
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1724,750,287 - 24,782,574 (+)NCBIChlSab1.1ChlSab1.1chlSab2
Vero_WHO_p1.0NW_0236660373,098,932 - 3,130,997 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Fam47e
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v1115,381,500 - 5,419,371 (+)NCBIRrattus_CSIRO_v1

Variants

.
Variants in Fam47e
275 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:58
Count of miRNA genes:52
Interacting mature miRNAs:55
Transcripts:ENSRNOT00000047214
Prediction methods:Microtar, 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 (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1300114Srn2Serum renin concentration QTL 23.27blood renin amount (VT:0003349)plasma renin activity level (CMO:0000116)14395787821572472Rat
2293089Iddm31Insulin dependent diabetes mellitus QTL 314.7blood glucose amount (VT:0000188)age at onset/diagnosis of type 1 diabetes mellitus (CMO:0001140)14395787818558812Rat
7411573Bw139Body weight QTL 1394.70.001body mass (VT:0001259)body weight gain (CMO:0000420)14140068101Rat
9589814Gluco67Glucose level QTL 674.540.001blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)14140068101Rat
731183Pia20Pristane induced arthritis QTL 203.55joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)14939329839411170Rat
631212Bw5Body weight QTL55.43retroperitoneal fat pad mass (VT:0010430)retroperitoneal fat pad weight to body weight ratio (CMO:0000635)141133490630674469Rat
2302277Gluco38Glucose level QTL 385.8blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)141133471628389666Rat
1331740Bw26Body weight QTL 263.028body mass (VT:0001259)body weight (CMO:0000012)14395787831121464Rat
71117Niddm17Non-insulin dependent diabetes mellitus QTL 172.35blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)14117877928Rat
1358296Ael3Aortic elastin QTL 33.70.00051aorta elastin amount (VT:0003905)aortic elastin14862139853621398Rat
70195Mcs8Mammary carcinoma susceptibility QTL 84.28mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)14395787824886169Rat
631839Niddm37Non-insulin dependent diabetes mellitus QTL 373.37blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)1411334716100078267Rat
634352Apr6Acute phase response QTL 63.7blood interleukin-6 amount (VT:0008595)plasma interleukin-6 level (CMO:0001927)14141415516Rat
70204Niddm20Non-insulin dependent diabetes mellitus QTL 205.10.000008blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)14131893212Rat
2302045Pia39Pristane induced arthritis QTL 394.90.001blood immunoglobulin amount (VT:0002460)serum immunoglobulin G2a level (CMO:0002116)14862139853621398Rat
1300140Srn3Serum renin concentration QTL 33.19blood renin amount (VT:0003349)plasma renin activity level (CMO:0000116)141513759431238250Rat


Expression

RNA-SEQ Expression

circulatory system
ectoderm
hemolymphoid system
mesenchyme
mesoderm
nervous system
renal system
reproductive system
sensory system
visual system
4 16 10 29 14 17 15 19 1 1

Sequence


Ensembl Acc Id: ENSRNOT00000117881   ⟹   ENSRNOP00000085925
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1415,769,050 - 15,806,061 (-)Ensembl
mRatBN7.2 Ensembl1415,485,127 - 15,521,775 (-)Ensembl
RefSeq Acc Id: XM_008770096   ⟹   XP_008768318
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81415,769,441 - 15,805,893 (-)NCBI
mRatBN7.21415,485,540 - 15,521,578 (-)NCBI
Rnor_6.01416,991,496 - 17,027,562 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017599433   ⟹   XP_017454922
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81415,769,441 - 15,805,903 (-)NCBI
mRatBN7.21415,485,539 - 15,521,585 (-)NCBI
Rnor_6.01416,991,496 - 17,027,563 (-)NCBI
Sequence:
RefSeq Acc Id: XM_039092676   ⟹   XP_038948604
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81415,769,441 - 15,805,902 (-)NCBI
mRatBN7.21415,485,539 - 15,521,585 (-)NCBI
RefSeq Acc Id: XM_039092678   ⟹   XP_038948606
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81415,769,441 - 15,805,911 (-)NCBI
mRatBN7.21415,485,538 - 15,521,592 (-)NCBI
RefSeq Acc Id: XP_008768318   ⟸   XM_008770096
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_017454922   ⟸   XM_017599433
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: XP_038948606   ⟸   XM_039092678
- Peptide Label: isoform X4
RefSeq Acc Id: XP_038948604   ⟸   XM_039092676
- Peptide Label: isoform X3
Ensembl Acc Id: ENSRNOP00000085925   ⟸   ENSRNOT00000117881

Transcriptome

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


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1585459 AgrOrtholog
BioCyc Gene G2FUF-16269 BioCyc
Ensembl Genes ENSRNOG00000062922 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000117881 ENTREZGENE
  ENSRNOT00000117881.2 UniProtKB/TrEMBL
InterPro FAM47 UniProtKB/TrEMBL
KEGG Report rno:686140 UniProtKB/TrEMBL
NCBI Gene 686140 ENTREZGENE
PANTHER PROTEIN FAM47E UniProtKB/TrEMBL
  PTHR46449 UniProtKB/TrEMBL
Pfam FAM47 UniProtKB/TrEMBL
PhenoGen Fam47e PhenoGen
RatGTEx ENSRNOG00000062922 RatGTEx
UniProt A0A8I6A2J7_RAT UniProtKB/TrEMBL
  A6KK67 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2022-06-02 Fam47e  family with sequence similarity 47, member E  Fam47e  family with sequence similarity 47, member E  Data merged from RGD:149736247 737654 PROVISIONAL
2021-08-09 Fam47e  family with sequence similarity 47, member E      Symbol and Name status set to provisional 45752 PROVISIONAL
2013-03-05 Fam47e  family with sequence similarity 47, member E  Fam47e-ps1  family with sequence similarity 47, member E, pseudogene 1  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2011-06-08 Fam47e-ps1  family with sequence similarity 47, member E, pseudogene 1  Fam47e  family with sequence similarity 47, member E  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2010-04-23 Fam47e  family with sequence similarity 47, member E  LOC686140  hypothetical protein LOC686140  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-01-09 LOC686140  hypothetical protein LOC686140  LOC684546  hypothetical protein LOC684546  Data merged from RGD:1589139 1643240 APPROVED
2006-11-19 LOC686140  hypothetical protein LOC686140      Symbol and Name status set to provisional 70820 PROVISIONAL
2006-11-19 LOC684546  hypothetical protein LOC684546      Symbol and Name status set to provisional 70820 PROVISIONAL