Fam171a1 (family with sequence similarity 171, member A1) - Rat Genome Database

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Gene: Fam171a1 (family with sequence similarity 171, member A1) Rattus norvegicus
Analyze
Symbol: Fam171a1
Name: family with sequence similarity 171, member A1
RGD ID: 1594172
Description: Predicted to be involved in regulation of cell shape and stress fiber assembly. Predicted to be located in plasma membrane. Orthologous to human FAM171A1 (family with sequence similarity 171 member A1); INTERACTS WITH 6-propyl-2-thiouracil; atrazine; bisphenol A.
Type: protein-coding
RefSeq Status: MODEL
Previously known as: hypothetical protein LOC680259; LOC103694133; LOC680259; uncharacterized LOC103694133
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
GRCr81779,933,742 - 80,057,495 (-)NCBIGRCr8
mRatBN7.21775,024,582 - 75,148,348 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1775,024,575 - 75,150,255 (-)EnsemblmRatBN7.2 Ensembl
Rnor_6.01779,030,150 - 79,149,480 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1779,031,423 - 79,085,076 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01780,668,493 - 80,784,735 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41786,143,621 - 86,266,740 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera1774,403,866 - 74,528,732 (-)NCBICelera
Cytogenetic Map17q12.3NCBI
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

Cellular Component
plasma membrane  (IBA,ISO)

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. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
3. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:23376485   PMID:30312582  


Genomics

Comparative Map Data
Fam171a1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81779,933,742 - 80,057,495 (-)NCBIGRCr8
mRatBN7.21775,024,582 - 75,148,348 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1775,024,575 - 75,150,255 (-)EnsemblmRatBN7.2 Ensembl
Rnor_6.01779,030,150 - 79,149,480 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1779,031,423 - 79,085,076 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01780,668,493 - 80,784,735 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41786,143,621 - 86,266,740 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera1774,403,866 - 74,528,732 (-)NCBICelera
Cytogenetic Map17q12.3NCBI
FAM171A1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381015,211,643 - 15,374,554 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1015,211,643 - 15,371,289 (-)EnsemblGRCh38hg38GRCh38
GRCh371015,253,642 - 15,413,288 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361015,293,648 - 15,453,064 (-)NCBINCBI36Build 36hg18NCBI36
Celera1015,186,204 - 15,346,555 (-)NCBICelera
Cytogenetic Map10p13NCBI
HuRef1015,167,039 - 15,239,397 (-)NCBIHuRef
CHM1_11015,254,028 - 15,413,304 (-)NCBICHM1_1
T2T-CHM13v2.01015,229,953 - 15,392,762 (-)NCBIT2T-CHM13v2.0
Fam171a1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm3923,115,261 - 3,228,843 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl23,115,261 - 3,228,843 (+)EnsemblGRCm39 Ensembl
GRCm3823,114,224 - 3,227,806 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl23,114,224 - 3,227,806 (+)EnsemblGRCm38mm10GRCm38
MGSCv3723,035,660 - 3,145,081 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv3623,035,660 - 3,145,081 (+)NCBIMGSCv36mm8
Celera23,123,896 - 3,179,837 (+)NCBICelera
Cytogenetic Map2A1NCBI
cM Map21.73NCBI
Fam171a1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495542919,114,953 - 19,241,987 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495542919,184,886 - 19,241,987 (+)NCBIChiLan1.0ChiLan1.0
FAM171A1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2828,058,056 - 28,221,781 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11028,063,383 - 28,227,107 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01015,533,814 - 15,696,362 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11015,814,643 - 15,886,708 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1015,814,643 - 15,977,675 (-)Ensemblpanpan1.1panPan2
FAM171A1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1221,445,602 - 21,505,564 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl221,445,726 - 21,504,249 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha218,487,184 - 18,618,094 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0221,675,022 - 21,806,071 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl221,674,938 - 21,806,841 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1218,875,069 - 19,006,314 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0219,710,023 - 19,841,376 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0220,336,878 - 20,468,123 (+)NCBIUU_Cfam_GSD_1.0
Fam171a1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440934416,244,247 - 16,322,908 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365745,743,722 - 5,799,197 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049365745,742,637 - 5,795,351 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
FAM171A1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1046,449,781 - 46,601,087 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11046,449,781 - 46,601,093 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21051,148,307 - 51,299,703 (+)NCBISscrofa10.2Sscrofa10.2susScr3
FAM171A1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1915,193,535 - 15,252,631 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl915,193,471 - 15,252,288 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366605120,756,519 - 20,902,761 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Fam171a1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_004624805203,496 - 346,101 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_004624805203,234 - 344,205 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Fam171a1
1295 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:65
Count of miRNA genes:61
Interacting mature miRNAs:61
Transcripts:ENSRNOT00000057851
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 (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

Markers in Region
BI301335  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21775,110,639 - 75,110,857 (+)MAPPERmRatBN7.2
Rnor_6.01779,115,856 - 79,116,073NCBIRnor6.0
Rnor_5.01780,751,111 - 80,751,328UniSTSRnor5.0
RGSC_v3.41786,232,676 - 86,232,893UniSTSRGSC3.4
Celera1774,489,064 - 74,489,281UniSTS
RH 3.4 Map17769.5UniSTS
Cytogenetic Map17q12.3UniSTS
AW532891  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21775,145,010 - 75,145,165 (+)MAPPERmRatBN7.2
Rnor_6.01779,149,837 - 79,149,991NCBIRnor6.0
Rnor_5.01780,785,092 - 80,785,246UniSTSRnor5.0
RGSC_v3.41786,267,092 - 86,267,246UniSTSRGSC3.4
Celera1774,523,455 - 74,523,609UniSTS
RH 3.4 Map17767.5UniSTS
Cytogenetic Map17q12.3UniSTS
RH137677  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21775,024,739 - 75,024,909 (+)MAPPERmRatBN7.2
Rnor_6.01779,030,268 - 79,030,437NCBIRnor6.0
Rnor_5.01780,668,611 - 80,668,780UniSTSRnor5.0
RGSC_v3.41786,143,779 - 86,143,948UniSTSRGSC3.4
Celera1774,403,984 - 74,404,153UniSTS
Cytogenetic Map17q12.3UniSTS


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 2 33 14 6 2 6 74 35 33 11
Low 1 10 43 35 17 35 8 11 8 8
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000057851   ⟹   ENSRNOP00000054660
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1775,025,891 - 75,080,712 (-)Ensembl
Rnor_6.0 Ensembl1779,031,423 - 79,085,076 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000106690   ⟹   ENSRNOP00000091660
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1775,024,575 - 75,150,255 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000118771   ⟹   ENSRNOP00000076443
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1775,027,573 - 75,150,255 (-)Ensembl
RefSeq Acc Id: XM_039096410   ⟹   XP_038952338
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81779,933,742 - 80,057,495 (-)NCBI
mRatBN7.21775,024,582 - 75,148,348 (-)NCBI
RefSeq Acc Id: XM_039096411   ⟹   XP_038952339
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81779,933,742 - 80,054,007 (-)NCBI
mRatBN7.21775,024,582 - 75,144,860 (-)NCBI
RefSeq Acc Id: XM_039096412   ⟹   XP_038952340
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81779,933,742 - 80,057,495 (-)NCBI
mRatBN7.21775,024,582 - 75,148,348 (-)NCBI
RefSeq Acc Id: XM_039096413   ⟹   XP_038952341
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81779,933,742 - 80,046,085 (-)NCBI
mRatBN7.21775,024,582 - 75,125,246 (-)NCBI
Reference Protein Sequences
RefSeq Acc Id: ENSRNOP00000054660   ⟸   ENSRNOT00000057851
RefSeq Acc Id: XP_038952340   ⟸   XM_039096412
- Peptide Label: isoform X3
- UniProtKB: A6JM27 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038952338   ⟸   XM_039096410
- Peptide Label: isoform X1
- UniProtKB: D4A7Y4 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038952339   ⟸   XM_039096411
- Peptide Label: isoform X2
- UniProtKB: A0A8I6AEW7 (UniProtKB/TrEMBL),   D4A7Y4 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038952341   ⟸   XM_039096413
- Peptide Label: isoform X3
- UniProtKB: A6JM27 (UniProtKB/TrEMBL)
RefSeq Acc Id: ENSRNOP00000076443   ⟸   ENSRNOT00000118771
RefSeq Acc Id: ENSRNOP00000091660   ⟸   ENSRNOT00000106690
Protein Domains
FAM171 C-terminal   FAM171 N-terminal

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D4A7Y4-F1-model_v2 AlphaFold D4A7Y4 1-862 view protein structure

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:1594172 AgrOrtholog
BioCyc Gene G2FUF-8636 BioCyc
Ensembl Genes ENSRNOG00000016534 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000057851.5 UniProtKB/TrEMBL
  ENSRNOT00000106690 ENTREZGENE
  ENSRNOT00000106690.1 UniProtKB/TrEMBL
  ENSRNOT00000118771.1 UniProtKB/TrEMBL
InterPro FAM171_C UniProtKB/TrEMBL
  FAM171_N UniProtKB/TrEMBL
  Uncharacterised_FAM171 UniProtKB/TrEMBL
NCBI Gene 680259 ENTREZGENE
PANTHER PROTEIN FAM171A1 UniProtKB/TrEMBL
  PTHR31626 UniProtKB/TrEMBL
Pfam FAM171A1-2-B_C UniProtKB/TrEMBL
  UPF0560 UniProtKB/TrEMBL
PhenoGen Fam171a1 PhenoGen
RatGTEx ENSRNOG00000016534 RatGTEx
UniProt A0A8I5Y4H6_RAT UniProtKB/TrEMBL
  A0A8I6AEW7 ENTREZGENE, UniProtKB/TrEMBL
  A6JM27 ENTREZGENE, UniProtKB/TrEMBL
  D4A7Y4 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2021-03-09 Fam171a1  family with sequence similarity 171, member A1  LOC103694133  uncharacterized LOC103694133  Data merged from RGD:9189229 737654 PROVISIONAL
2014-08-25 LOC103694133  uncharacterized LOC103694133      Symbol and Name status set to provisional 70820 PROVISIONAL
2013-05-24 Fam171a1  family with sequence similarity 171, member A1  LOC684862  hypothetical protein LOC684862  Data merged from RGD:1585534 1643240 APPROVED
2008-10-23 Fam171a1  family with sequence similarity 171, member A1  LOC680259  hypothetical protein LOC680259  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-11-20 LOC680259  hypothetical protein LOC680259      Symbol and Name status set to provisional 70820 PROVISIONAL
2006-11-19 LOC684862  hypothetical protein LOC684862      Symbol and Name status set to provisional 70820 PROVISIONAL