Hottip (Hoxa distal transcript antisense RNA) - Rat Genome Database

Send us a Message



Submit Data |  Help |  Video Tutorials |  News |  Publications |  Download |  REST API |  Citing RGD |  Contact   
Gene: Hottip (Hoxa distal transcript antisense RNA) Mus musculus
Analyze
Symbol: Hottip
Name: Hoxa distal transcript antisense RNA
RGD ID: 1616050
MGI Page MGI
Description: Acts upstream of or within several processes, including bone morphogenesis; hindlimb morphogenesis; and skeletal muscle fiber development. Is expressed in several structures, including cartilage and limb. Orthologous to human HOTTIP (HOXA distal transcript antisense RNA); INTERACTS WITH potassium dichromate.
Type: ncrna
RefSeq Status: VALIDATED
Also known as: ENSMUSG00000055408; Gm15053
RGD Orthologs
Human
Alliance Genes
More Info more info ...
Latest Assembly: GRCm38 - Mouse Genome Assembly GRCm38
Position:
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39652,239,760 - 52,244,588 (+)NCBIGRCm39mm39
GRCm39 Ensembl652,239,760 - 52,244,588 (+)Ensembl
GRCm38652,262,775 - 52,267,603 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl652,262,775 - 52,267,603 (+)EnsemblGRCm38mm10GRCm38
Celera652,784,237 - 52,789,065 (+)NCBICelera
Cytogenetic Map6B3NCBI
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

References

References - curated
1. RGD automated import pipeline
2. RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:10349636   PMID:11042159   PMID:11076861   PMID:11217851   PMID:12466851   PMID:16141072   PMID:16141073   PMID:21423168   PMID:24316575   PMID:24381249   PMID:25909911   PMID:26633036  
PMID:28369467   PMID:28384324   PMID:30070332   PMID:30129112   PMID:30548190   PMID:30562760   PMID:31508417   PMID:31697875  


Genomics

Comparative Map Data
Hottip
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39652,239,760 - 52,244,588 (+)NCBIGRCm39mm39
GRCm39 Ensembl652,239,760 - 52,244,588 (+)Ensembl
GRCm38652,262,775 - 52,267,603 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl652,262,775 - 52,267,603 (+)EnsemblGRCm38mm10GRCm38
Celera652,784,237 - 52,789,065 (+)NCBICelera
Cytogenetic Map6B3NCBI
HOTTIP
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl727,198,575 - 27,207,259 (+)EnsemblGRCh38hg38GRCh38
GRCh38727,200,421 - 27,207,259 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh37727,240,040 - 27,246,878 (+)NCBIGRCh37GRCh37hg19GRCh37
Celera727,228,994 - 27,231,387 (+)NCBI
Cytogenetic Map7p15.2NCBI
HuRef727,120,607 - 27,126,718 (+)NCBIHuRef
CHM1_1727,239,764 - 27,245,854 (+)NCBICHM1_1
CRA_TCAGchr7v2727,291,225 - 27,297,319 (+)NCBI


QTLs in Region (GRCm38)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
25440480Moaq2_mmodifier of alien QTL 2 (mouse)61117500000Mouse
26884414Bzwq12_mbi-zygomatic width QTL 12, 16 week (mouse)63400000139100000Mouse
1300556Cia6_mcollagen induced arthritis QTL 6 (mouse)Not determined6446488487426034Mouse
4142126W3q3_mweight 3 weeks QTL 3 (mouse)Not determined450382396656149Mouse
4142361W10q11_mweight 10 weeks QTL 11 (mouse)Not determined450382396656149Mouse
4142271Egq8_mearly growth QTL 8 (mouse)Not determined450382396656149Mouse
4142232W6q4_mweight 6 weeks QTL 4 (mouse)Not determined450382396656149Mouse
26884441Sklq3_mskull length QTL 3, 5 week (mouse)6760000080600000Mouse
27226726Tibmd7_mtibia midshaft diameter 7, 16 week (mouse)61770000053500000Mouse
1357442Dbts1_mdiabetes 1 (mouse)Not determined61823414873387692Mouse
12904940Edlmmq5_mextensor digitorum longus muscle mass QTL 5 (mouse)61963941153639411Mouse
12904943Tammq4_mtibialis anterior muscle mass QTL 4 (mouse)61963941153639411Mouse
12904952Gmmq4_mgastrocnemius muscle mass QTL 4 (mouse)61963941153639411Mouse
10412213Sxbq2_mSGC/Knj cross B6 QTL 2 (mouse)Not determined61991268671322775Mouse
10412107Desp4_mdespair 4 (mouse)Not determined62007289554072895Mouse
14700690Ccs6_mcolon cancer susceptibility 6 (mouse)62380000057800000Mouse
13208564Bmiq7_mbody mass index QTL 7 (mouse)62500000080000000Mouse
4141988Obrq3_mobesity resistance QTL 3 (mouse)Not determined2831405962314181Mouse
4141454Obrq4_mobesity resistance QTL 4 (mouse)Not determined3172656565726677Mouse
12880425V25Dq5_mvitamin D inactive form serum level QTL 5 (mouse)63270000066700000Mouse
4141782Mrdq5_mmodifier of retinal degeneration QTL 5 (mouse)Not determined3285065078238974Mouse
1300959Lxw2_mlupus BXSB x NZW 2 (mouse)Not determined63389528167895420Mouse
11252142Mom12_mModifier of Min 12 (mouse)63389528167895420Mouse
1300767Aliq4_macute lung injury QTL 4 (mouse)Not determined63629634770296450Mouse
1357539Bsbob3_mBSB obesity 3 (mouse)Not determined63647147170471591Mouse
4141094Hrtr1_mheart rate 1 (mouse)Not determined3676447870764478Mouse
14746995Manh60_mmandible shape 60 (mouse)63722567771225677Mouse
1558984Cplaq9_mcircadian period of locomotor activity 9 (mouse)Not determined63866962592607450Mouse
1301326Trbv4c2_mT cell receptor beta variable 4 (mouse)Not determined64089129671379171Mouse
12880424V25Dq4_mvitamin D inactive form serum level QTL 4 (mouse)64160000075600000Mouse
1301266Lmr4_mleishmaniasis resistance 4 (mouse)Not determined64211637376116515Mouse
11040600Lmr4c_mleishmaniasis resistance 4c (mouse)64211637376116515Mouse
11040601Lmr4a_mleishmaniasis resistance 4a (mouse)64211637376116515Mouse
11533915Mts4_mmammary tumor susceptibility 4 (mouse)64211637376116515Mouse
12910785Pwgrq16_mpost-weaning growth rate QTL 16 (mouse)64382681377811523Mouse
12910798Pwgrq5_mpre-weaning growth rate QTL 5 (mouse)64382681377811523Mouse
12910802Pwbwq12_mpost-weaning body weight QTL 12 (mouse)64382681377811523Mouse
12910807Pwbwq11_mpost-weaning body weight QTL 11 (mouse)64382681377811523Mouse
12910809Pwbwq10_mpost-weaning body weight QTL 10 (mouse)64382681377811523Mouse
12910820Ogrq3_moverall growth rate QTL 3 (mouse)64382681377811523Mouse
10043885Cia6c_mcollagen induced arthritis QTL 6c (mouse)Not determined64446587171119467Mouse
1300618Pgia19_mproteoglycan induced arthritis 19 (mouse)Not determined64531405987426034Mouse
10412157Fl1n_mfatty liver 1 in NSY (mouse)Not determined645314059128835032Mouse
4142259Tabw2_mtally ho associated body weight 2 (mouse)Not determined46935985136423692Mouse
25314319Histh6_mhistamine hypersensitivity 6 (mouse)648720000125360000Mouse
25314320Histh5_mhistamine hypersensitivity 5 (mouse)648720000148450000Mouse
4140983Srilp_msleep response to influenza, light phase (mouse)Not determined4872655675447710Mouse
1301962Eila2_methanol induced locomotor activity 2 (mouse)Not determined648726556125356785Mouse
1301254Skts11_mskin tumor susceptibility 11 (mouse)Not determined65117915085179300Mouse
14696807Rbcn2_mrod bipolar cell number 2 (mouse)65121000056210000Mouse
1357683Igf1sl1_mIGF-1 serum levels 1 (mouse)Not determined652161713116155267Mouse

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:85
Count of miRNA genes:81
Interacting mature miRNAs:82
Transcripts:ENSMUST00000141300, ENSMUST00000152875
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.


Expression


Sequence


Reference Sequences
RefSeq Acc Id: ENSMUST00000141300
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38.p6 Ensembl652,262,784 - 52,267,079 (+)Ensembl
RefSeq Acc Id: ENSMUST00000152875
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38.p6 Ensembl652,262,775 - 52,267,603 (+)Ensembl
RefSeq Acc Id: NR_110441
RefSeq Status: VALIDATED
Type: NON-CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39652,239,760 - 52,244,588 (+)NCBI
GRCm38652,262,775 - 52,267,603 (+)NCBI
Celera652,784,237 - 52,789,065 (+)NCBI
Sequence:
RefSeq Acc Id: NR_110442
RefSeq Status: VALIDATED
Type: NON-CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39652,239,760 - 52,244,588 (+)NCBI
GRCm38652,262,775 - 52,267,603 (+)NCBI
Celera652,784,237 - 52,789,065 (+)NCBI
Sequence:
Promoters
RGD ID:6889750
Promoter ID:EPDNEW_M8326
Type:single initiation site
Name:Hottip_1
Description:Mus musculus Hoxa distal transcript antisense RNA , transcriptvariant 2, 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
GRCm38652,262,863 - 52,262,923EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene MGI:3642509 AgrOrtholog
Ensembl Genes ENSMUSG00000055408 Ensembl, ENTREZGENE
Ensembl Transcript ENSMUST00000141300 ENTREZGENE
  ENSMUST00000152875 ENTREZGENE
MGD MGI:3642509 ENTREZGENE
NCBI Gene 791364 ENTREZGENE
PhenoGen Hottip PhenoGen
RNAcentral URS0000759CAD RNACentral
  URS000075E31D RNACentral
UniProt Q8CCA9_MOUSE UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2014-03-05 Hottip  Hoxa distal transcript antisense RNA  Gm15053  predicted gene 15053  Symbol and/or name change 5135510 APPROVED