Noto (notochord homeobox) - Rat Genome Database

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Gene: Noto (notochord homeobox) Mus musculus
Analyze
Symbol: Noto
Name: notochord homeobox
RGD ID: 1557459
MGI Page MGI
Description: Predicted to enable DNA-binding transcription factor activity, RNA polymerase II-specific and RNA polymerase II cis-regulatory region sequence-specific DNA binding activity. Acts upstream of or within several processes, including embryonic organ development; motile cilium assembly; and regulation of cilium assembly. Predicted to be located in nucleoplasm. Predicted to be active in nucleus. Is expressed in several structures, including embryo mesoderm; mesendoderm; primitive streak; and tail. Orthologous to human NOTO (notochord homeobox).
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: Fl; Flh; floating head homolog; homeobox protein notochord; MmN; MmNot; N; Not; Not homeodomain protein; notochord homolog; notochord homolog (Xenopus laevis); tc; truncate
RGD Orthologs
Human
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCm39 - Mouse Genome Assembly GRCm39
Position:
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39685,400,851 - 85,405,859 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl685,400,868 - 85,405,859 (+)EnsemblGRCm39 Ensembl
GRCm38685,423,886 - 85,428,877 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl685,423,886 - 85,428,877 (+)EnsemblGRCm38mm10GRCm38
MGSCv37685,373,880 - 85,378,871 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36685,389,587 - 85,393,928 (+)NCBIMGSCv36mm8
Celera687,395,820 - 87,400,823 (+)NCBICelera
Cytogenetic Map6C3NCBI
cM Map637.44NCBI
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
nucleoplasm  (TAS)
nucleus  (IBA)

Phenotype Annotations     Click to see Annotation Detail View
References

References - curated
# Reference Title Reference Citation
1. MGDs mouse GO annotations MGD data from the GO Consortium
2. MGD IEA MGD IEA
3. Mouse MP Annotation Import Pipeline RGD automated import pipeline
4. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:8155581   PMID:9745042   PMID:10349636   PMID:10512192   PMID:11042159   PMID:11076861   PMID:11217851   PMID:12466851   PMID:12477932   PMID:13837681   PMID:15231714   PMID:15533813  
PMID:15550757   PMID:16141072   PMID:16141073   PMID:17884984   PMID:17954925   PMID:18061569   PMID:19720144   PMID:20197654   PMID:20350929   PMID:21677750   PMID:21873635   PMID:22008794  
PMID:22028328   PMID:22357932   PMID:23110100   PMID:23383217   PMID:23552073   PMID:23839921   PMID:24585447   PMID:25813538   PMID:27305836   PMID:27914912   PMID:28292423   PMID:28666954  
PMID:28839193   PMID:29650695   PMID:30279523   PMID:30380057   PMID:31391582   PMID:32597756   PMID:33051257   PMID:34210974   PMID:34531379   PMID:34903892   PMID:37967203  


Genomics

Comparative Map Data
Noto
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39685,400,851 - 85,405,859 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl685,400,868 - 85,405,859 (+)EnsemblGRCm39 Ensembl
GRCm38685,423,886 - 85,428,877 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl685,423,886 - 85,428,877 (+)EnsemblGRCm38mm10GRCm38
MGSCv37685,373,880 - 85,378,871 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36685,389,587 - 85,393,928 (+)NCBIMGSCv36mm8
Celera687,395,820 - 87,400,823 (+)NCBICelera
Cytogenetic Map6C3NCBI
cM Map637.44NCBI
NOTO
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38273,202,574 - 73,212,513 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl273,202,574 - 73,212,513 (+)EnsemblGRCh38hg38GRCh38
GRCh37273,429,702 - 73,439,641 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36273,283,303 - 73,291,565 (+)NCBINCBI36Build 36hg18NCBI36
Celera273,280,211 - 73,289,166 (+)NCBICelera
Cytogenetic Map2p13.2NCBI
HuRef273,165,048 - 73,174,001 (+)NCBIHuRef
CHM1_1273,360,196 - 73,369,145 (+)NCBICHM1_1
T2T-CHM13v2.0273,215,563 - 73,225,502 (+)NCBIT2T-CHM13v2.0
Noto
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr84119,518,663 - 119,522,902 (+)NCBIGRCr8
mRatBN7.24117,961,163 - 117,965,402 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl4117,961,163 - 117,965,402 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx4123,442,533 - 123,446,764 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.04119,217,646 - 119,221,878 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.04117,831,017 - 117,835,241 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.04117,206,355 - 117,210,856 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl4117,206,355 - 117,210,856 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.04181,783,984 - 181,788,485 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.44119,677,428 - 119,681,667 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera4106,943,268 - 106,947,507 (+)NCBICelera
Cytogenetic Map4q34NCBI
Noto
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0NW_00495542412,424,984 - 12,431,562 (-)NCBIChiLan1.0ChiLan1.0
NOTO
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21253,168,170 - 53,177,905 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan12A53,170,954 - 53,180,655 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v02A73,254,440 - 73,265,315 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.12A74,744,181 - 74,752,950 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl2A74,744,181 - 74,752,950 (+)Ensemblpanpan1.1panPan2
NOTO
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Dog10K_Boxer_Tasha1749,297,679 - 49,303,203 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.01750,516,997 - 50,522,508 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1750,520,436 - 50,522,602 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11749,533,281 - 49,538,821 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01749,599,989 - 49,605,677 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01750,159,142 - 50,164,707 (-)NCBIUU_Cfam_GSD_1.0
Noto
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440629211,574,738 - 11,583,644 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493649116,987,642 - 16,996,579 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_00493649116,987,797 - 16,996,423 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
SMYD5
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl369,567,449 - 69,571,100 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1369,566,112 - 69,571,165 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2372,771,108 - 72,774,415 (-)NCBISscrofa10.2Sscrofa10.2susScr3
NOTO
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11433,962,173 - 33,975,040 (-)NCBIChlSab1.1ChlSab1.1chlSab2
Vero_WHO_p1.0NW_02366604578,110,683 - 78,121,663 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Noto
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_004624762430,981 - 439,422 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:503
Count of miRNA genes:289
Interacting mature miRNAs:390
Transcripts:ENSMUST00000089578, ENSMUST00000174469
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 (GRCm39)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
4142271Egq8_mearly growth QTL 8 (mouse)Not determined450382396633110Mouse
10043864T2dm4sa_mtype 2 diabetes mellitus 4 in SMXA RI mice (mouse)Not determined683690851146954059Mouse
1301521Pas1c_mpulmonary adenoma susceptibility 1c (mouse)Not determined671958006105958152Mouse
14697704Stsl4_mSalmonella typhimurium susceptibility locus 4 (mouse)67707698389976982Mouse
10412119Stv_mstriatal volumne (mouse)Not determined660026991100026967Mouse
1300954Fcsa1_mfemoral cross-sectional area 1 (mouse)Not determined671958006105958152Mouse
13824985Alh1_mamplitude of lateral head displacement 1 (mouse)67797698396976961Mouse
4142259Tabw2_mtally ho associated body weight 2 (mouse)Not determined46912919136400690Mouse
25314319Histh6_mhistamine hypersensitivity 6 (mouse)648696934125336963Mouse
12792979Fbmd2_mfemoral bone mineral density 2, females only (mouse)675026989115026943Mouse
1301571Arrd1_mage-related retinal degeneration 1 (mouse)Not determined67552133992584431Mouse
4142126W3q3_mweight 3 weeks QTL 3 (mouse)Not determined450382396633110Mouse
1300674Nidd3n_mnon-insulin-dependent diabetes mellitus 3 in NSY (mouse)Not determined67552133994202936Mouse
25314320Histh5_mhistamine hypersensitivity 5 (mouse)648696934148351498Mouse
1558977Skmw10_mskeletal muscle weight 10 (mouse)Not determined65842456692424693Mouse
1300869Stheal5_msoft tissue heal 5 (mouse)Not determined671552042105552160Mouse
1302020Bbaa20_mB.burgdorferi-associated arthritis 20 (mouse)Not determined67129960593441074Mouse
1300618Pgia19_mproteoglycan induced arthritis 19 (mouse)Not determined64529099387403016Mouse
1301962Eila2_methanol induced locomotor activity 2 (mouse)Not determined648703490125333748Mouse
4141990Etax6_methanol induced ataxia 6 (mouse)Not determined7129960586252701Mouse
4141028Mclr_mmethylcholanthrene lymphoma resistance (mouse)Not determined5435041188356155Mouse
1301320Ots1_movarian teratoma susceptibility 1 (mouse)Not determined675424566104480516Mouse
10043972Obq28_mobesity QTL 28 (mouse)Not determined65851741692517416Mouse
1300556Cia6_mcollagen induced arthritis QTL 6 (mouse)Not determined6446488487403016Mouse
1558984Cplaq9_mcircadian period of locomotor activity 9 (mouse)Not determined63864656092584431Mouse
10412157Fl1n_mfatty liver 1 in NSY (mouse)Not determined645290993128811995Mouse
11251720Ewc4_methanol withdrawal and consumption 4 (mouse)684099474118099474Mouse
25440480Moaq2_mmodifier of alien QTL 2 (mouse)63050001117476961Mouse
26884414Bzwq12_mbi-zygomatic width QTL 12, 16 week (mouse)63400000139076998Mouse
10043901Pfat5_mpredicted fat percentage 5 (mouse)Not determined675584287109584431Mouse
4142361W10q11_mweight 10 weeks QTL 11 (mouse)Not determined450382396633110Mouse
1301813Skl3_mskeletal size (tail length) 3 (mouse)Not determined670402880104403016Mouse
4142232W6q4_mweight 6 weeks QTL 4 (mouse)Not determined450382396633110Mouse
1357683Igf1sl1_mIGF-1 serum levels 1 (mouse)Not determined652138693116132228Mouse
1301876Bits2_mbitterness sensitivity 2 (mouse)Not determined670402880104403016Mouse
1357875Pfat2_mpredicted fat percentage 2 (mouse)Not determined676440930110441074Mouse
15039373Adip28_madiposity 28 (mouse)65628519490285194Mouse
15039375Bw41_mbody weight QTL 41 (mouse)65628519490285194Mouse
1301369Im4_mimmunoregulatory 4 (mouse)Not determined66346172197461888Mouse
10412208Cypr4_mcytokine production 4 (mouse)Not determined675693484109693678Mouse
1300650Bw18_mbody weight QTL 18 (mouse)Not determined666690851100691013Mouse
1301034Egrm2_mearly growth rate (mouse)Not determined670402880104403016Mouse
14696731Pairq1_mP. aeruginosa infection resistance QTL 1 (mouse)681476981102176961Mouse
13506930Recrq9_mrecombination rate in male meiosis QTL 9 (mouse)673476983134676963Mouse
10412195Efw_mepididymal fat weight (mouse)Not determined67552133994202936Mouse
1301740Bwq2_mbody weight QTL 2 (mouse)Not determined66003466394034782Mouse
4141376Dbm1_mdiabetes modifier 1 (mouse)Not determined678606487121092347Mouse

Markers in Region
AU022460  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm38685,428,062 - 85,428,274UniSTSGRCm38
MGSCv37685,378,056 - 85,378,268UniSTSGRCm37
Celera687,400,008 - 87,400,220UniSTS
Cytogenetic Map6C3UniSTS
cM Map635.5UniSTS
Whitehead/MRC_RH6883.63UniSTS
Noto  
Mouse AssemblyChrPosition (strand)SourceJBrowse
Cytogenetic Map6C3UniSTS
cM Map635.6UniSTS


Expression

RNA-SEQ Expression


Sequence


Ensembl Acc Id: ENSMUST00000089578   ⟹   ENSMUSP00000087006
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl685,400,868 - 85,405,859 (+)Ensembl
GRCm38.p6 Ensembl685,423,886 - 85,428,877 (+)Ensembl
Ensembl Acc Id: ENSMUST00000174469   ⟹   ENSMUSP00000134424
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl685,401,050 - 85,405,259 (+)Ensembl
GRCm38.p6 Ensembl685,424,068 - 85,428,277 (+)Ensembl
RefSeq Acc Id: NM_001007472   ⟹   NP_001007473
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39685,400,868 - 85,405,859 (+)NCBI
GRCm38685,423,886 - 85,428,877 (+)ENTREZGENE
MGSCv37685,373,880 - 85,378,871 (+)RGD
Celera687,395,820 - 87,400,823 (+)RGD
cM Map6 ENTREZGENE
Sequence:
RefSeq Acc Id: XM_006506356   ⟹   XP_006506419
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39685,400,851 - 85,405,255 (+)NCBI
GRCm38685,423,899 - 85,428,273 (+)NCBI
Sequence:
RefSeq Acc Id: NP_001007473   ⟸   NM_001007472
- UniProtKB: Q5TIS6 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_006506419   ⟸   XM_006506356
- Peptide Label: isoform X1
- UniProtKB: G3UZB3 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSMUSP00000134424   ⟸   ENSMUST00000174469
Ensembl Acc Id: ENSMUSP00000087006   ⟸   ENSMUST00000089578

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q5TIS6-F1-model_v2 AlphaFold Q5TIS6 1-240 view protein structure

Promoters
RGD ID:6839694
Promoter ID:MM_KWN:46680
Type:CpG-Island
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:Spleen
Transcripts:ENSMUST00000089578
Position:
Mouse AssemblyChrPosition (strand)Source
MGSCv36685,373,236 - 85,373,736 (+)MPROMDB
RGD ID:6890222
Promoter ID:EPDNEW_M8562
Type:single initiation site
Name:Noto_1
Description:Mus musculus notochord homeobox , mRNA.
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
GRCm38685,423,886 - 85,423,946EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene MGI:3053002 AgrOrtholog
Ensembl Genes ENSMUSG00000068302 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Ensembl Transcript ENSMUST00000089578 ENTREZGENE
  ENSMUST00000089578.9 UniProtKB/Swiss-Prot
  ENSMUST00000174469 ENTREZGENE
  ENSMUST00000174469.2 UniProtKB/TrEMBL
Gene3D-CATH Homeodomain-like UniProtKB/Swiss-Prot
InterPro EMX-VAX-Noto_Homeobox_TFs UniProtKB/Swiss-Prot
  Homeobox-like_sf UniProtKB/Swiss-Prot
  Homeobox_dom UniProtKB/Swiss-Prot
KEGG Report mmu:384452 UniProtKB/Swiss-Prot
MGD MGI:3053002 ENTREZGENE
NCBI Gene Noto ENTREZGENE
PANTHER HOMEOBOX PROTEIN EMX-RELATED UniProtKB/Swiss-Prot
  HOMEOBOX PROTEIN NOTOCHORD UniProtKB/Swiss-Prot
Pfam Homeodomain UniProtKB/Swiss-Prot
PhenoGen Noto PhenoGen
PROSITE HOMEOBOX_2 UniProtKB/Swiss-Prot
SMART HOX UniProtKB/Swiss-Prot
Superfamily-SCOP SSF46689 UniProtKB/Swiss-Prot
UniProt G3UZB3 ENTREZGENE, UniProtKB/TrEMBL
  NOTO_MOUSE UniProtKB/Swiss-Prot, ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2024-08-21 Noto  notochord homeobox  Noto  notochord homolog (Xenopus laevis)  Symbol and/or name change 5135510 APPROVED
2024-08-21 Noto  notochord homolog (Xenopus laevis)  Noto  notochord homeobox  Symbol and/or name change 5135510 APPROVED
2016-02-29 Noto  notochord homeobox    notochord homolog (Xenopus laevis)  Symbol and/or name change 5135510 APPROVED