Phtf1os (putative homeodomain transcription factor 1, opposite strand) - Rat Genome Database

Send us a Message
Submit Data |  Help |  Video Tutorials |  News |  Publications |  Download |  REST API |  Citing RGD |  Contact   
Search RGD Grant Resources Citing RGD About Us Contact Us
Genes Variants Community Projects QTLs Strains Markers Genome Information Ontologies Cell Lines References Download Submit Data
OntoMate (Literature Search) JBrowse (Genome Browser) Synteny Browser (VCMap) Variant Visualizer Multi-Ontology Enrichment (MOET) Gene-Ortholog Location Finder (GOLF) InterViewer (Protein-Protein Interactions) PhenoMiner (Quatitative Phenotypes) Gene Annotator OLGA (Gene List Generator) AllianceMine GViewer (Genome Viewer)
Aging & Age-Related Disease Cancer & Neoplastic Disease Cardiovascular Disease Coronavirus Disease Developmental Disease Diabetes Hematologic Disease Immune & Inflammatory Disease Infectious Disease Liver Disease Neurological Disease Obesity & Metabolic Syndrome Renal Disease Respiratory Disease Sensory Organ Disease
Find Models   new Genetic Models Autism Models Rat PhenoMiner (Quantitative Phenotypes) Chinchilla PhenoMiner Expected Ranges (Quantitative Phenotype) PhenoMiner Term Comparison Hybrid Rat Diversity Panel Phenotypes Phenotypes in Other Animal Models Animal Husbandry Strain Medical Records Phylogenetics Strain Availability Calendar Rats 101 Submissions Photo Archive
Pathways
Rat Community Forum Directory of Rat Laboratories Video Tutorials News RGD Publications RGD Presentations Archive Nomenclature Guidelines Resource Links Laboratory Resources Employment Resources
Gene: Phtf1os (putative homeodomain transcription factor 1, opposite strand) Mus musculus
Analyze
Symbol: Phtf1os
Name: putative homeodomain transcription factor 1, opposite strand
RGD ID: 2293043
MGI Page MGI
Description: INTERACTS WITH bisphenol A; titanium dioxide
Type: ncrna (Ensembl: lncRNA)
RefSeq Status: VALIDATED
Previously known as: A130049A11Rik
Latest Assembly: GRCm39 - Mouse Genome Assembly GRCm39
Position:
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm393103,871,852 - 103,875,632 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl3103,871,852 - 103,875,897 (-)EnsemblGRCm39 Ensembl
GRCm383103,964,536 - 103,968,316 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl3103,964,536 - 103,968,581 (-)EnsemblGRCm38mm10GRCm38
MGSCv373103,768,459 - 103,772,239 (-)NCBIGRCm37MGSCv37mm9NCBIm37
Celera3106,166,900 - 106,170,680 (-)NCBICelera
Cytogenetic Map3F2.2NCBI
cM Map345.52NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
References
Additional References at PubMed
PMID:10349636   PMID:10922068   PMID:11042159   PMID:11076861   PMID:11217851   PMID:12466851   PMID:16141072   PMID:16141073   PMID:18799693   PMID:24316575  


Genomics

Variants

.
Variants in Phtf1os
9 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:56
Count of miRNA genes:55
Interacting mature miRNAs:56
Transcripts:ENSMUST00000160110
Prediction methods:Miranda, Rnahybrid
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 (GRCm39)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
26884436Zlq3_mzygomatic length QTL 3, 10 week (mouse)33265060142405761Mouse
26884427Cvht4_mcranial vault height 4, 10 week (mouse)316054164109707316Mouse
13207570Tcq12_mtotal cholesterol QTL 12 (mouse)316504164130163649Mouse
26884422Cvht7_mcranial vault height 7, 16 week (mouse)328954149118893649Mouse
1302056Orgwq4_morgan weight QTL 4 (mouse)Not determined330067588147304689Mouse
1301705Sles3_msystemic lupus erythmatosus suppressor 3 (mouse)Not determined337174862143353183Mouse
13208566Bmiq5_mbody mass index QTL 5 (mouse)340954435115793649Mouse
26884382Bzwq1_mbi-zygomatic width QTL 1, 5 week (mouse)352207421137205761Mouse
25314313Syncl1_msynaptonemal complex length 1 (mouse)367907333128393649Mouse
1301422Sle11_msystematic lupus erythematosus susceptibility 11 (mouse)Not determined370208904104209042Mouse
11049572Lmr11c_mleishmaniasis resistance 11c (mouse)372139967106140094Mouse
1300982Lmr11_mleishmaniasis resistance 11 (mouse)Not determined372139967106140094Mouse
1300595Tmevd2_mTheiler's murine encephalomyelitis virus induced demyelinating disease susceptibility 2 (mouse)Not determined375463302109463549Mouse
1301392Eae3_msusceptibility to experimental allergic encephalomyelitis 3 (mouse)Not determined379548730113548837Mouse
1301947Pcfm3_mperiosteal circumference and femur length 3 (mouse)Not determined381084652115084797Mouse
1301904Iba2_minduction of brown adipocytes 2 (mouse)Not determined382147043116147184Mouse
11041900Lmr11a_mleishmaniasis resistance 11a (mouse)383463991117464137Mouse
11039510Ltpr3d_mLeishmania tropica response 3d (mouse)383463991117464137Mouse
11039511Ltpr3c_mLeishmania tropica response 3c (mouse)383463991117464137Mouse
11039507Ltpr3g_mLeishmania tropica response 3g (mouse)383463991117464137Mouse
11039508Ltpr3f_mLeishmania tropica response 3f (mouse)383463991117464137Mouse
11039509Ltpr3e_mLeishmania tropica response 3e (mouse)383463991117464137Mouse
11039512Ltpr3b_mLeishmania tropica response 3b (mouse)383463991117464137Mouse
1301272Cfsw1_mcystic fibrosis survival to weaning 1 (mouse)Not determined383882912117883044Mouse
4142099Cq3_mcholesterol QTL 3 (mouse)Not determined384888918118889067Mouse
14746984Manh54_mmandible shape 54 (mouse)385289152119289152Mouse
1357583Sle18_msystematic lupus erythematosus susceptibility 18 (mouse)Not determined387208904125316236Mouse
12738440Twq3_mtestis weight QTL 3 (mouse)387228015121228015Mouse
4142178Ctrq2_mC. trachomatis resistance QTL 2 (mouse)Not determined389139967137453008Mouse
10766455Sle22_msystematic lupus erythematosus susceptibility 22 (mouse)390376936124377072Mouse
14747001Mancz4_mmandible centroid size 4 (mouse)390378017124378017Mouse
1302052Etohcta4_methanol conditioned taste aversion 4 (mouse)Not determined391000105125008748Mouse
1301349Pgia26_mproteoglycan induced arthritis 26 (mouse)Not determined392251533126251650Mouse
27226732Tibmd3_mtibia midshaft diameter 3, 10 week (mouse)396607316147805636Mouse
10043955Wt10q4_mbody weight, 10 weeks, QTL 4 (mouse)Not determined398624041132624197Mouse
11533920Mvb3_mmodifier of vibrator 3 (mouse)398635284132635383Mouse
12792984Modn1_mmodifier of Dstn neovascularization 1 (mouse)398635284132635383Mouse
1302114Tbs1_mtuberculosis severity 1 (mouse)Not determined398924105132924250Mouse
1300752Ap6q_malcohol preference 6 QTL (mouse)Not determined3100372912147045722Mouse
26884419Bzwq6_mbi-zygomatic width QTL 6, 10 week (mouse)3100607316137205761Mouse
27226733Tibmd6_mtibia midshaft diameter 6, 16 week (mouse)3101307316149805637Mouse
1301805Mors2_mmodifier of obesity related sterility 2 (mouse)Not determined3103482659137482783Mouse


Expression


Sequence


Reference Sequences
RefSeq Acc Id: ENSMUST00000160110
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl3103,871,852 - 103,875,897 (-)Ensembl
GRCm38.p6 Ensembl3103,964,536 - 103,968,581 (-)Ensembl
RefSeq Acc Id: NR_030676
RefSeq Status: VALIDATED
Type: NON-CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm393103,871,852 - 103,875,632 (-)NCBI
GRCm383103,964,536 - 103,968,316 (-)ENTREZGENE
MGSCv373103,768,459 - 103,772,239 (-)RGD
Celera3106,166,900 - 106,170,680 (-)RGD
cM Map3 ENTREZGENE
Sequence:
Protein Sequences
GenBank Protein BAC29868 (Get FASTA)   NCBI Sequence Viewer  
  BAC33421 (Get FASTA)   NCBI Sequence Viewer  
  BAC34659 (Get FASTA)   NCBI Sequence Viewer  
Reference Protein Sequences

Promoters
RGD ID:6881892
Promoter ID:EPDNEW_M4397
Type:initiation region
Name:Phtf1os_1
Description:Mus musculus putative homeodomain transcription factor 1, oppositestrand , long non-coding RNA.
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm383103,968,315 - 103,968,375EPDNEW

Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSMUSG00000089998 Ensembl, ENTREZGENE
Ensembl Transcript ENSMUST00000160110 ENTREZGENE
MGD MGI:3698050 ENTREZGENE
NCBI Gene 100125931 ENTREZGENE
PhenoGen Phtf1os PhenoGen
RNAcentral URS000075D668 RNACentral
UniProt Q8BGC6_MOUSE UniProtKB/TrEMBL
  Q8BQ56_MOUSE UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2013-11-26 Phtf1os  putative homeodomain transcription factor 1, opposite strand    Phtf1 opposite strand transcript  Symbol and/or name change 5135510 APPROVED
2013-11-19 Phtf1os  Phtf1 opposite strand transcript  A130049A11Rik  RIKEN cDNA A130049A11 gene  Symbol and/or name change 5135510 APPROVED