Fam170b (family with sequence similarity 170, member B) - Rat Genome Database

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Gene: Fam170b (family with sequence similarity 170, member B) Rattus norvegicus
Analyze
Symbol: Fam170b
Name: family with sequence similarity 170, member B
RGD ID: 2318714
Description: Predicted to be involved in fertilization; positive regulation of acrosome reaction; and regulation of fertilization. Predicted to be located in outer acrosomal membrane. Predicted to be active in acrosomal vesicle. Orthologous to human FAM170B (family with sequence similarity 170 member B); INTERACTS WITH 3-chloropropane-1,2-diol; trichloroethene; aflatoxin B1 (ortholog).
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: LOC100362169; rCG42349-like
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8168,108,210 - 8,111,020 (+)NCBIGRCr8
mRatBN7.2168,101,914 - 8,104,724 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl168,101,914 - 8,104,705 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx168,120,706 - 8,123,516 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0169,265,605 - 9,268,415 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0168,113,290 - 8,116,100 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0169,074,044 - 9,076,885 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl169,074,033 - 9,076,865 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01611,038,456 - 11,041,249 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4168,359,344 - 8,361,599 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera167,100,834 - 7,103,682 (-)NCBICelera
Cytogenetic Map16p16NCBI
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

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.
Additional References at PubMed
PMID:26179146  


Genomics

Comparative Map Data
Fam170b
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8168,108,210 - 8,111,020 (+)NCBIGRCr8
mRatBN7.2168,101,914 - 8,104,724 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl168,101,914 - 8,104,705 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx168,120,706 - 8,123,516 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0169,265,605 - 9,268,415 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0168,113,290 - 8,116,100 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0169,074,044 - 9,076,885 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl169,074,033 - 9,076,865 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01611,038,456 - 11,041,249 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4168,359,344 - 8,361,599 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera167,100,834 - 7,103,682 (-)NCBICelera
Cytogenetic Map16p16NCBI
FAM170B
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381049,131,154 - 49,134,021 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1049,131,154 - 49,134,021 (-)EnsemblGRCh38hg38GRCh38
GRCh371050,339,199 - 50,342,066 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361050,009,205 - 50,012,083 (-)NCBINCBI36Build 36hg18NCBI36
Celera1043,924,786 - 43,927,652 (-)NCBICelera
Cytogenetic Map10q11.23NCBI
HuRef1044,603,939 - 44,606,805 (-)NCBIHuRef
CHM1_11050,621,005 - 50,623,871 (-)NCBICHM1_1
T2T-CHM13v2.01049,980,036 - 49,982,902 (-)NCBIT2T-CHM13v2.0
Fam170b
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391432,555,938 - 32,558,746 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1432,555,919 - 32,558,746 (+)EnsemblGRCm39 Ensembl
GRCm381432,833,962 - 32,836,789 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1432,833,962 - 32,836,789 (+)EnsemblGRCm38mm10GRCm38
MGSCv371433,647,148 - 33,649,975 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361431,663,413 - 31,665,881 (+)NCBIMGSCv36mm8
Celera1429,091,197 - 29,094,024 (+)NCBICelera
Cytogenetic Map14BNCBI
cM Map1419.4NCBI
Fam170b
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049555561,072,692 - 1,077,761 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049555561,072,826 - 1,075,332 (+)NCBIChiLan1.0ChiLan1.0
FAM170B
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2861,398,023 - 61,400,890 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11061,403,342 - 61,406,209 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01045,110,158 - 45,113,019 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
FAM170B
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1281,046,362 - 1,059,992 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha281,275,335 - 1,288,740 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0281,222,515 - 1,235,927 (-)NCBIROS_Cfam_1.0
UMICH_Zoey_3.1281,020,871 - 1,034,297 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0281,064,692 - 1,078,076 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0281,187,756 - 1,201,172 (-)NCBIUU_Cfam_GSD_1.0
Fam170b
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440721379,930,591 - 79,933,421 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049367281,133,569 - 1,135,787 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049367281,133,569 - 1,135,742 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
FAM170B
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1489,752,705 - 89,755,121 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11489,752,340 - 89,754,922 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21497,546,814 - 97,549,782 (-)NCBISscrofa10.2Sscrofa10.2susScr3
FAM170B
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1942,667,503 - 42,671,443 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl942,668,682 - 42,670,983 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_0236660482,429,382 - 2,432,251 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Fam170b
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_004624928821,167 - 823,610 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Fam170b
14 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:116
Count of miRNA genes:97
Interacting mature miRNAs:106
Transcripts:ENSRNOT00000027193
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
631561Hcuc2Hepatic copper content QTL 22.8liver copper amount (VT:0003065)liver total copper weight (CMO:0001507)16139533949Rat
1582235Insul8Insulin level QTL 83.30.0063blood insulin amount (VT:0001560)calculated serum insulin level (CMO:0000359)16126727669Rat
2307172Activ4Activity QTL 43.710.00023locomotor behavior trait (VT:0001392)number of entries into a discrete space in an experimental apparatus (CMO:0000960)16133418960Rat
1354584Despr6Despair related QTL 63.10.0067locomotor behavior trait (VT:0001392)amount of time spent in voluntary immobility (CMO:0001043)16139533930Rat
1357403Slep4Serum leptin concentration QTL 43.91blood leptin amount (VT:0005667)serum leptin level (CMO:0000780)1619639137Rat
2302380Slep6Serum leptin concentration QTL 63.36blood leptin amount (VT:0005667)serum leptin level (CMO:0000780)16132139025Rat
737819Hcas4Hepatocarcinoma susceptibility QTL 44.43liver integrity trait (VT:0010547)volume of individual liver tumorous lesion (CMO:0001078)16422760946975965Rat
9590151Scort8Serum corticosterone level QTL 88.450.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)16130836262Rat
1354625Despr7Despair related QTL 73.160.016locomotor behavior trait (VT:0001392)amount of time spent in voluntary immobility (CMO:0001043)16144977551Rat
61338Bp23Blood pressure QTL 234.3arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)16422760949227609Rat
61405Niddm6Non-insulin dependent diabetes mellitus QTL 63.660.001blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)16422760948972724Rat
631830Alc7Alcohol consumption QTL 72.9consumption behavior trait (VT:0002069)ethanol drink intake rate (CMO:0001407)16126727669Rat
7411664Foco30Food consumption QTL 30110.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)16144588133Rat
1600378Arunc4Aerobic running capacity QTL 40.03exercise endurance trait (VT:0002332)maximum distance run on treadmill (CMO:0001406)1638024580345693Rat
70183BpQTLcluster13Blood pressure QTL cluster 133.654arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)16422760943025077Rat
1600369Hcas8Hepatocarcinoma susceptibility QTL 8liver integrity trait (VT:0010547)liver tumorous lesion number (CMO:0001068)16122477621Rat
737826Alc11Alcohol consumption QTL 113.2consumption behavior trait (VT:0002069)ethanol drink intake rate (CMO:0001407)16422760960252231Rat
737825Alc13Alcohol consumption QTL 134.5consumption behavior trait (VT:0002069)ethanol drink intake rate (CMO:0001407)16422760916039848Rat
2303566Bw90Body weight QTL 902body mass (VT:0001259)body weight (CMO:0000012)16139533930Rat
2312663Slep9Serum leptin concentration QTL 90.001blood leptin amount (VT:0005667)serum leptin level (CMO:0000780)1683223659492508Rat
2306902Bp339Blood pressure QTL 3390.01arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)16338015043025077Rat
1300133Rf24Renal function QTL 243.64blood creatinine amount (VT:0005328)creatinine clearance (CMO:0000765)16338015021361552Rat
2312660Bw95Body weight QTL 950.05inguinal fat pad mass (VT:0010424)inguinal fat pad weight to body weight ratio (CMO:0001253)1683223659492508Rat
2312666Insul16Insulin level QTL 160.01blood insulin amount (VT:0001560)serum insulin level (CMO:0000358)1683223659492508Rat
634355Rends4Renal damage susceptibility QTL 40.05kidney blood vessel morphology trait (VT:0000530)organ lesion measurement (CMO:0000677)16126727669Rat
61372Bp40Blood pressure QTL 402.2blood pressure trait (VT:0000183)systolic blood pressure (CMO:0000004)16422773017696785Rat
2293343Glom16Glomerulus QTL 167.4kidney glomerulus integrity trait (VT:0010546)kidney sclerotic glomeruli count to total glomeruli count ratio (CMO:0001269)1683223646053497Rat
2301406Kidm39Kidney mass QTL 390.002kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)16285170915884239Rat
6903319Bw114Body weight QTL 1142.70.0037body mass (VT:0001259)body weight (CMO:0000012)16143534949Rat
2312669Stl23Serum triglyceride level QTL 230.01blood triglyceride amount (VT:0002644)serum triglyceride level (CMO:0000360)1683223659492508Rat

Markers in Region
D16Rat123  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2168,100,411 - 8,100,635 (+)MAPPERmRatBN7.2
Rnor_6.0169,072,549 - 9,072,772NCBIRnor6.0
Rnor_5.01611,036,931 - 11,037,154UniSTSRnor5.0
RGSC_v3.4168,357,749 - 8,357,973RGDRGSC3.4
RGSC_v3.4168,357,750 - 8,357,973UniSTSRGSC3.4
RGSC_v3.1168,357,747 - 8,357,971RGD
Celera167,104,952 - 7,105,175UniSTS
SHRSP x BN Map163.4RGD
SHRSP x BN Map163.4UniSTS


Expression

RNA-SEQ Expression

alimentary part of gastrointestinal system
appendage
circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
integumental system
mesenchyme
mesoderm
nervous system
renal system
reproductive system
respiratory system
5 3 5 32 22 27 6 9 6 5 42 28 18 1 42 21

Sequence


Ensembl Acc Id: ENSRNOT00000027193   ⟹   ENSRNOP00000027193
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl168,101,914 - 8,104,705 (+)Ensembl
Rnor_6.0 Ensembl169,074,033 - 9,076,865 (+)Ensembl
RefSeq Acc Id: NM_001399444   ⟹   NP_001386373
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8168,108,210 - 8,111,020 (+)NCBI
mRatBN7.2168,101,914 - 8,104,724 (+)NCBI
Protein Sequences
Protein RefSeqs NP_001386373 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000027193.8
GenBank Protein QHI05891 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Acc Id: ENSRNOP00000027193   ⟸   ENSRNOT00000027193
RefSeq Acc Id: NP_001386373   ⟸   NM_001399444
- UniProtKB: A0A6B9RX81 (UniProtKB/TrEMBL),   D3ZLX4 (UniProtKB/TrEMBL)

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D3ZLX4-F1-model_v2 AlphaFold D3ZLX4 1-376 view protein structure

Transcriptome

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

Promoters
RGD ID:13699947
Promoter ID:EPDNEW_R10468
Type:initiation region
Name:Fam170b_1
Description:family with sequence similarity 170, 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_6.0169,074,071 - 9,074,131EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:2318714 AgrOrtholog
BioCyc Gene G2FUF-12098 BioCyc
Ensembl Genes ENSRNOG00000020077 Ensembl, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000027193.8 UniProtKB/TrEMBL
InterPro Spt46-like UniProtKB/TrEMBL
NCBI Gene 100362169 ENTREZGENE
PANTHER PTHR33517 UniProtKB/TrEMBL
  PTHR33517:SF2 UniProtKB/TrEMBL
Pfam Spt46 UniProtKB/TrEMBL
PhenoGen Fam170b PhenoGen
RatGTEx ENSRNOG00000020077 RatGTEx
UniProt A0A6B9RX81 ENTREZGENE
  D3ZLX4 ENTREZGENE, UniProtKB/TrEMBL
UniProt Secondary A0A6B9RX81 UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2012-08-27 Fam170b  family with sequence similarity 170, member B  LOC100362169  rCG42349-like  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2010-05-05 LOC100362169  rCG42349-like      Symbol and Name status set to provisional 70820 PROVISIONAL