Fam174c (family with sequence similarity 174 member C) - Rat Genome Database

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Gene: Fam174c (family with sequence similarity 174 member C) Rattus norvegicus
Analyze
Symbol: Fam174c (Ensembl: RGD1562114)
Name: family with sequence similarity 174 member C (Ensembl:RGD1562114)
RGD ID: 1562114
Description: Predicted to be located in cytoplasm. Predicted to be active in extracellular region. Orthologous to human FAM174C (family with sequence similarity 174 member C); INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; bisphenol A; Cuprizon.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: hypothetical protein LOC500795; LOC500795; RGD1562114; RGD1562114; uncharacterized membrane protein C19orf24 homolog; uncharacterized protein LOC500795
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
GRCr8710,182,653 - 10,184,363 (-)NCBIGRCr8
mRatBN7.279,531,995 - 9,533,705 (-)NCBImRatBN7.2mRatBN7.2
UTH_Rnor_SHR_Utx712,414,967 - 12,416,677 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0714,290,306 - 14,292,016 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0712,151,398 - 12,153,108 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0712,398,200 - 12,399,910 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl712,398,200 - 12,399,910 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0712,568,305 - 12,570,015 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4711,043,998 - 11,045,708 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera77,708,170 - 7,709,880 (-)NCBICelera
Cytogenetic Map7q11NCBI
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

Cellular Component

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:16847563  


Genomics

Comparative Map Data
Fam174c
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8710,182,653 - 10,184,363 (-)NCBIGRCr8
mRatBN7.279,531,995 - 9,533,705 (-)NCBImRatBN7.2mRatBN7.2
UTH_Rnor_SHR_Utx712,414,967 - 12,416,677 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0714,290,306 - 14,292,016 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0712,151,398 - 12,153,108 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0712,398,200 - 12,399,910 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl712,398,200 - 12,399,910 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0712,568,305 - 12,570,015 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4711,043,998 - 11,045,708 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera77,708,170 - 7,709,880 (-)NCBICelera
Cytogenetic Map7q11NCBI
FAM174C
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38191,275,530 - 1,279,228 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl191,275,530 - 1,279,244 (+)EnsemblGRCh38hg38GRCh38
GRCh37191,275,529 - 1,279,227 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36191,226,551 - 1,230,227 (+)NCBINCBI36Build 36hg18NCBI36
Build 34191,226,550 - 1,230,226NCBI
Celera191,209,752 - 1,213,531 (+)NCBICelera
Cytogenetic Map19p13.3NCBI
HuRef191,049,614 - 1,053,393 (+)NCBIHuRef
CHM1_1191,275,759 - 1,279,475 (+)NCBICHM1_1
T2T-CHM13v2.0191,244,053 - 1,247,807 (+)NCBIT2T-CHM13v2.0
Fam174c
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391080,008,778 - 80,010,953 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1080,008,778 - 80,010,980 (+)EnsemblGRCm39 Ensembl
GRCm381080,172,944 - 80,175,119 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1080,172,944 - 80,175,146 (+)EnsemblGRCm38mm10GRCm38
MGSCv371079,635,689 - 79,637,864 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361079,576,073 - 79,578,248 (+)NCBIMGSCv36mm8
Celera1081,187,803 - 81,189,978 (+)NCBICelera
Cytogenetic Map10C1NCBI
cM Map1039.72NCBI
Fam174c
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554956,631,767 - 6,634,282 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049554956,631,767 - 6,634,282 (-)NCBIChiLan1.0ChiLan1.0
FAM174C
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2205,617,372 - 5,621,770 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1194,853,961 - 4,858,344 (+)NCBINHGRI_mPanPan1
FAM174C
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Dog10K_Boxer_Tasha2057,322,234 - 57,323,817 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.02058,262,139 - 58,263,721 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2058,262,146 - 58,265,011 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12057,317,972 - 57,319,552 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02057,797,252 - 57,798,823 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02058,000,230 - 58,001,812 (-)NCBIUU_Cfam_GSD_1.0
Fam174c
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405118217,190,947 - 217,193,586 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_004936588641,195 - 644,831 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_004936588641,197 - 643,836 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
FAM174C
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl277,185,308 - 77,188,501 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1277,185,295 - 77,189,248 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2277,841,258 - 77,844,392 (+)NCBISscrofa10.2Sscrofa10.2susScr3
FAM174C
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.161,043,355 - 1,047,656 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl61,044,000 - 1,047,778 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_0236660817,815,797 - 7,819,547 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Fam174c
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046248287,398,243 - 7,401,041 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046248287,398,243 - 7,400,937 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Fam174c
3 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:39
Count of miRNA genes:37
Interacting mature miRNAs:39
Transcripts:ENSRNOT00000021677
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
61410Bw19Body weight QTL 196.20.001body mass (VT:0001259)body weight (CMO:0000012)7144782185Rat
1300176Hrtrt10Heart rate QTL 103.19heart pumping trait (VT:2000009)heart rate (CMO:0000002)766427026029351Rat
9590102Sffal5Serum free fatty acids level QTL 58.620.001blood free fatty acid amount (VT:0001553)plasma free fatty acids level (CMO:0000546)7532901950329019Rat
1643004Pain2Pain QTL 21mechanical nociception trait (VT:0002734)self mutilation severity score (CMO:0002145)7946224698011544Rat
631503Bp102Blood pressure QTL 1021.9arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)7144822433Rat
634336Anxrr17Anxiety related response QTL 173.66locomotor behavior trait (VT:0001392)number of entries into a discrete space in an experimental apparatus (CMO:0000960)7924703115097879Rat
10755438Coatc9Coat color QTL 90coat/hair pigmentation trait (VT:0010463)pigmented ventral coat/hair area to total ventral coat/hair area ratio (CMO:0001812)7352928048529280Rat
9590142Scort5Serum corticosterone level QTL 524.40.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)7131962314Rat
2298547Neuinf5Neuroinflammation QTL 53.7nervous system integrity trait (VT:0010566)spinal cord Cd74 protein level (CMO:0002131)7946224658265113Rat
10059592Kidm45Kidney mass QTL 453.950.025kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)7757398552573985Rat
2317047Wbc4White blood cell count QTL 40.01leukocyte quantity (VT:0000217)white blood cell count (CMO:0000027)7135342956Rat
10755440Coatc10Coat color QTL 100coat/hair pigmentation trait (VT:0010463)pigmented ventral coat/hair area to total ventral coat/hair area ratio (CMO:0001812)7749649952496499Rat
2298550Neuinf6Neuroinflammation QTL 63.3nervous system integrity trait (VT:0010566)spinal cord RT1-B protein level (CMO:0002132)7127829089Rat
724560Plsm3Polydactyly-luxate syndrome (PLS) morphotypes QTL 30.0003tibia length (VT:0004357)tibia length (CMO:0000450)7134000259Rat
7411566Bw136Body weight QTL 13610.40.001body mass (VT:0001259)body weight gain (CMO:0000420)7131962314Rat

Markers in Region
Cirbp-rs1  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.279,535,076 - 9,535,266 (+)MAPPERmRatBN7.2
Rnor_6.0712,401,282 - 12,401,471NCBIRnor6.0
Rnor_5.0712,571,387 - 12,571,576UniSTSRnor5.0
RGSC_v3.4711,047,080 - 11,047,269UniSTSRGSC3.4
Celera77,711,252 - 7,711,441UniSTS
Cytogenetic Map7q11UniSTS
RH125133  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.279,535,143 - 9,535,265 (+)MAPPERmRatBN7.2
Rnor_6.0712,401,349 - 12,401,470NCBIRnor6.0
Rnor_5.0712,571,454 - 12,571,575UniSTSRnor5.0
RGSC_v3.4711,047,147 - 11,047,268UniSTSRGSC3.4
Celera77,711,319 - 7,711,440UniSTS
Cytogenetic Map7q11UniSTS


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
9 11 49 113 91 90 59 25 59 6 218 97 93 45 60 31

Sequence


Ensembl Acc Id: ENSRNOT00000021677   ⟹   ENSRNOP00000021677
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl712,398,200 - 12,399,910 (-)Ensembl
RefSeq Acc Id: NM_001109283   ⟹   NP_001102753
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8710,182,653 - 10,184,363 (-)NCBI
mRatBN7.279,531,995 - 9,533,705 (-)NCBI
Rnor_6.0712,398,200 - 12,399,910 (-)NCBI
Rnor_5.0712,568,305 - 12,570,015 (-)NCBI
RGSC_v3.4711,043,998 - 11,045,708 (-)RGD
Celera77,708,170 - 7,709,880 (-)RGD
Sequence:
Protein Sequences
Protein RefSeqs NP_001102753 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EDL89312 (Get FASTA)   NCBI Sequence Viewer  
  EDL89313 (Get FASTA)   NCBI Sequence Viewer  
RefSeq Acc Id: NP_001102753   ⟸   NM_001109283
- Peptide Label: precursor
- UniProtKB: A6K8P2 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000021677   ⟸   ENSRNOT00000021677

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D4AAG2-F1-model_v2 AlphaFold D4AAG2 1-111 view protein structure

Transcriptome

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

Promoters
RGD ID:13695030
Promoter ID:EPDNEW_R5554
Type:multiple initiation site
Name:RGD1562114_1
Description:RGD1562114
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_6.0712,399,906 - 12,399,966EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1562114 AgrOrtholog
BioCyc Gene G2FUF-34921 BioCyc
Ensembl Genes ENSRNOG00000016193 Ensembl
InterPro DUF1180 UniProtKB/TrEMBL
KEGG Report rno:500795 UniProtKB/TrEMBL
NCBI Gene 500795 ENTREZGENE
PANTHER EXPRESSED PROTEIN UniProtKB/TrEMBL
  PROTEIN FAM174C UniProtKB/TrEMBL
Pfam DUF1180 UniProtKB/TrEMBL
PhenoGen Fam174c PhenoGen
RatGTEx ENSRNOG00000016193 RatGTEx
UniProt A6K8P2 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2019-09-30 Fam174c  family with sequence similarity 174 member C  RGD1562114  RGD1562114  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-04-30 RGD1562114  RGD1562114   RGD1562114_predicted  RGD1562114 (predicted)  'predicted' is removed 2292626 APPROVED
2006-03-07 RGD1562114_predicted  RGD1562114 (predicted)  LOC500795  LOC500795  Symbol and Name status set to approved 1299863 APPROVED
2006-02-09 LOC500795  LOC500795      Symbol and Name status set to provisional 70820 PROVISIONAL