Scx (scleraxis) - Rat Genome Database

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Gene: Scx (scleraxis) Mus musculus
Analyze
Symbol: Scx
Name: scleraxis
RGD ID: 1618406
MGI Page MGI
Description: Enables DNA-binding transcription activator activity, RNA polymerase II-specific; RNA polymerase II cis-regulatory region sequence-specific DNA binding activity; and bHLH transcription factor binding activity. Contributes to E-box binding activity. Involved in several processes, including collagen fibril organization; regulation of gene expression; and skeletal system development. Acts upstream of or within several processes, including cellular response to growth factor stimulus; cellular response to mechanical stimulus; and face morphogenesis. Located in nucleus. Part of transcription regulator complex. Is expressed in several structures, including embryo mesenchyme; genitourinary system; gut; limb; and sensory organ. Orthologous to human SCX (scleraxis bHLH transcription factor).
Type: protein-coding
RefSeq Status: REVIEWED
Also known as: basic helix-loop-helix transcription factor scleraxis; BB114693; bHLHa; bHLHa41; S; Scl
RGD Orthologs
Human
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: GRCm38 - Mouse Genome Assembly GRCm38
Position:
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391576,341,594 - 76,343,668 (+)NCBIGRCm39mm39
GRCm39 Ensembl1576,341,652 - 76,343,658 (+)Ensembl
GRCm381576,457,411 - 76,459,468 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1576,457,452 - 76,459,458 (+)EnsemblGRCm38mm10GRCm38
MGSCv371576,287,868 - 76,289,898 (+)NCBIGRCm37mm9NCBIm37
MGSCv361576,284,693 - 76,286,716 (+)NCBImm8
Celera1577,957,869 - 77,959,899 (+)NCBICelera
Cytogenetic Map15D3NCBI
cM Map1535.92NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

References

References - curated
1. RGD automated import pipeline
2. RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:7729571   PMID:7743923   PMID:8889548   PMID:8918877   PMID:8955271   PMID:9027489   PMID:9050988   PMID:9106663   PMID:9328840   PMID:9520323   PMID:9799236   PMID:10208749  
PMID:10349636   PMID:10477299   PMID:10804168   PMID:10804169   PMID:11042159   PMID:11076861   PMID:11217851   PMID:11585810   PMID:12168674   PMID:12441295   PMID:12466851   PMID:12477932  
PMID:12705871   PMID:12837285   PMID:14568104   PMID:15183306   PMID:15261831   PMID:15371327   PMID:15604102   PMID:15618518   PMID:15634692   PMID:15728667   PMID:15788460   PMID:15804569  
PMID:16141072   PMID:16141073   PMID:16169709   PMID:16408284   PMID:16971476   PMID:17138667   PMID:17430895   PMID:17477400   PMID:17497702   PMID:17567668   PMID:17693064   PMID:18239943  
PMID:18287559   PMID:18361414   PMID:18498113   PMID:18539921   PMID:18557763   PMID:18684439   PMID:18802027   PMID:18816853   PMID:19176584   PMID:19198652   PMID:19304887   PMID:19362560  
PMID:19384958   PMID:19463829   PMID:19590010   PMID:19698141   PMID:19828133   PMID:19996321   PMID:20059953   PMID:20059955   PMID:20193675   PMID:20206616   PMID:20498044   PMID:20696843  
PMID:20740671   PMID:21038449   PMID:21173153   PMID:21254332   PMID:21267068   PMID:21399989   PMID:21455939   PMID:21600772   PMID:21625049   PMID:21873635   PMID:21913219   PMID:21939397  
PMID:22147266   PMID:22190307   PMID:22228095   PMID:22377357   PMID:22421048   PMID:22438570   PMID:22474292   PMID:22837482   PMID:23034633   PMID:23349075   PMID:23499659   PMID:23555841  
PMID:23615282   PMID:23650387   PMID:23653374   PMID:23720048   PMID:24044893   PMID:24058692   PMID:24146773   PMID:24154528   PMID:24157418   PMID:24194600   PMID:24385915   PMID:24912677  
PMID:24983472   PMID:25249460   PMID:25715398   PMID:25926361   PMID:26062940   PMID:26395480   PMID:26443819   PMID:26701347   PMID:26883788   PMID:26969076   PMID:26988708   PMID:27019229  
PMID:27324126   PMID:27527664   PMID:27864378   PMID:28166224   PMID:28172500   PMID:28327634   PMID:28332620   PMID:28438836   PMID:29084951   PMID:29231808   PMID:29453333   PMID:29507095  
PMID:29618652   PMID:29750994   PMID:29768404   PMID:30021842   PMID:30225906   PMID:30738849   PMID:30745426   PMID:30854720   PMID:31320326   PMID:31540914   PMID:31719045   PMID:31874220  
PMID:32132649   PMID:32439983   PMID:32463804   PMID:32580935   PMID:32877217   PMID:33201874   PMID:33248111   PMID:33259516   PMID:33482080   PMID:34150754  


Genomics

Comparative Map Data
Scx
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391576,341,594 - 76,343,668 (+)NCBIGRCm39mm39
GRCm39 Ensembl1576,341,652 - 76,343,658 (+)Ensembl
GRCm381576,457,411 - 76,459,468 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1576,457,452 - 76,459,458 (+)EnsemblGRCm38mm10GRCm38
MGSCv371576,287,868 - 76,289,898 (+)NCBIGRCm37mm9NCBIm37
MGSCv361576,284,693 - 76,286,716 (+)NCBImm8
Celera1577,957,869 - 77,959,899 (+)NCBICelera
Cytogenetic Map15D3NCBI
cM Map1535.92NCBI
SCX
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl8144,266,453 - 144,268,481 (+)EnsemblGRCh38hg38GRCh38
GRCh388144,265,060 - 144,268,483 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh378145,321,356 - 145,323,384 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 368145,393,505 - 145,395,033 (+)NCBINCBI36hg18NCBI36
Celera8141,665,524 - 141,666,939 (+)NCBI
Cytogenetic Map8q24.3NCBI
HuRef8140,605,530 - 140,607,095 (+)NCBIHuRef
CHM1_18145,595,226 - 145,596,688 (+)NCBICHM1_1
Scx
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.27108,176,608 - 108,178,626 (+)NCBImRatBN7.2
mRatBN7.2 Ensembl7108,176,608 - 108,178,626 (+)Ensembl
Rnor_6.07117,519,075 - 117,521,093 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl7117,519,075 - 117,521,093 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.07117,506,706 - 117,508,724 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.47114,504,701 - 114,506,719 (+)NCBIRGSC3.4rn4RGSC3.4
Celera7104,528,235 - 104,530,253 (+)NCBICelera
Cytogenetic Map7q34NCBI
Scx
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554542,886,981 - 2,888,829 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554542,886,981 - 2,888,829 (+)NCBIChiLan1.0ChiLan1.0
SCX
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.18144,018,463 - 144,021,487 (+)NCBIpanpan1.1PanPan1.1panPan2
Mhudiblu_PPA_v08141,027,765 - 141,031,194 (+)NCBIMhudiblu_PPA_v0panPan3
SCX
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11337,701,781 - 37,704,949 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1337,703,232 - 37,704,657 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1337,665,396 - 37,668,564 (+)NCBI
ROS_Cfam_1.01338,178,072 - 38,181,239 (+)NCBI
UMICH_Zoey_3.11337,850,219 - 37,853,385 (+)NCBI
UNSW_CanFamBas_1.01337,978,828 - 37,981,997 (+)NCBI
UU_Cfam_GSD_1.01338,455,164 - 38,458,331 (+)NCBI
Scx
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
SpeTri2.0NW_0049364707,966,096 - 7,972,379 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
SCX
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl4501,172 - 502,994 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.14500,884 - 503,276 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
SCX
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.18138,476,902 - 138,482,185 (+)NCBI
ChlSab1.1 Ensembl8138,478,458 - 138,480,459 (+)Ensembl
Vero_WHO_p1.0NW_0236660391,384,906 - 1,388,296 (-)NCBI
Scx
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462473512,579,963 - 12,583,128 (-)NCBI

Position Markers
Scx  
Mouse AssemblyChrPosition (strand)SourceJBrowse
MGSCv371576,288,588 - 76,289,638UniSTSGRCm37
Celera1577,958,589 - 77,959,639UniSTS
Cytogenetic Map15D3UniSTS
cM Map1543.3UniSTS
cM Map1543.0UniSTS
cM Map1543.3UniSTS
Scx  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm381576,458,158 - 76,459,208UniSTSGRCm38
MGSCv371576,288,588 - 76,289,638UniSTSGRCm37
Celera1577,958,589 - 77,959,639UniSTS
Cytogenetic Map15D3UniSTS
cM Map1543.3UniSTS
Scx  
Mouse AssemblyChrPosition (strand)SourceJBrowse
Cytogenetic Map15D3UniSTS
cM Map1543.3UniSTS
Scx  
Mouse AssemblyChrPosition (strand)SourceJBrowse
Cytogenetic Map15D3UniSTS


QTLs in Region (GRCm38)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
4141952W3q7_mweight 3 weeks QTL 7 (mouse)Not determined346021278717086Mouse
4142448Tailq6_mtail length QTL 6 (mouse)Not determined346021278717086Mouse
4142252Tailaq4_mtail length adjusted QTL 4 (mouse)Not determined346021278717086Mouse
1357559Scfq2_msubcutaneous fat pad weight QTL 2 (mouse)Not determined15346021278717086Mouse
1357659Epfpq4_mepididymal fat percentage QTL 4 (mouse)Not determined15346021278717086Mouse
27095932Ulnl11_mulna length 11, 16 week (mouse)15610000076500000Mouse
27226717Tibw4_mtibia width 4, proximal, 10 week (mouse)15610000078800000Mouse
27226734Tibmd5_mtibia midshaft diameter 5, 10 week (mouse)15610000086800000Mouse
26884442Sklq6_mskull length QTL 6, 5 week (mouse)156100000100900000Mouse
27226777Tibl8_mtibia length 8, 5 week (mouse)15690000084700000Mouse
1301433Rapop5_mradiation-induced apoptosis 5 (mouse)Not determined15927293679590561Mouse
1357526Hyplip2_mhyperlipidemia 2 (mouse)Not determined1512402117102988123Mouse
26884425Cvht2_mcranial vault height 2, 5 week (mouse)1528800000102100000Mouse
1558985Eae32_mexperimental allergic encephalomyelitis susceptibility 32 (mouse)Not determined1532578270103517472Mouse
27226729Tibmd2_mtibia midshaft diameter 2, 5 week (mouse)153800000086800000Mouse
26884402Cvht9_mcranial vault height 9, 16 week (mouse)154230000095600000Mouse
1300644Fob3_mF-line obesity QTL 3 (mouse)11.3Not determined154414443889377036Mouse
1357703Vtbt17_mvertebral trabecular bone trait 17 (mouse)Not determined154468146478681588Mouse
1301568Tria2_mT-cell receptor induced activation 2 (mouse)Not determined154498729278987432Mouse
1357756Alaa4_malopecia areata 4 (mouse)Not determined154651779780517996Mouse
10755515Amzn3_manatomical modifier of Zfp423 3 (mouse)154651779780517996Mouse
1301006Hfib1_mhepatic fibrogenesis 1 (mouse)Not determined154743448581434630Mouse
1301860Gct3_mgranulosa cell tumorigenesis 3 (mouse)Not determined154753774781537842Mouse
26884397Humsd5_mhumerus midshaft diameter 5, 10 week (mouse)154850000098500000Mouse
26884399Humsd1_mhumerus midshaft diameter 1, 5 week (mouse)1548500000101800000Mouse
1301429Pcir3_mperiosteal circumference 3 (mouse)Not determined154859351382593647Mouse
1301779Dpml_mdopamine loss (mouse)Not determined155114129876910293Mouse
4142198Hbtq_mhabituation QTL (mouse)Not determined155128885985288984Mouse
10045637Heal27_mwound healing/regeneration 29 (mouse)Not determined155154651285546662Mouse
10412067Pain2_mpain 2 (mouse)Not determined155177349085773777Mouse
1302080Szs13_mseizure susceptibility 13 (mouse)Not determined155181398385822600Mouse
1301708Cocrb14_mcocaine related behavior 14 (mouse)Not determined155193466685934802Mouse
38501067Tip3_mtuberculosis immunophenotype 3, IFN-g level (mouse)155370000089700000Mouse
13504731Cath5_mcarotid atherosclerosis 5 (mouse)155491728088917280Mouse
1302074Bmd4_mbone mineral density 4 (mouse)Not determined1556323312103517472Mouse
27095936Ulnl4_mulna length 4, 5 week (mouse)155690000087800000Mouse
1300800Ses3_msalmonella enteritidis susceptibility 3 (mouse)Not determined155724515691245304Mouse
1357407Pfat4_mpredicted fat percentage 4 (mouse)8.6Body fat amountpredicted fat percentage155724515691245304Mouse
12880420V25Dq8_mvitamin D inactive form serum level QTL 8 (mouse)156170000095700000Mouse
1301601Faq9_mfluctuating asymmetry QTL 9 (mouse)Not determined156327970297279794Mouse
1558786Msq1_mMAV-1 susceptibility QTL 1 (mouse)Not determined156351779781202235Mouse
1302197Bhr2_mbronchial hyperresponsiveness 2 (mouse)Not determined1564434485103517472Mouse
4141135Cia35_mcollagen induced arthritis 35 (mouse)Not determined156492762598927745Mouse
1301119Drb7_mdopamine receptor binding 7 (mouse)Not determined156545237799456827Mouse
1301171Brm2_mbrachyury modifier 2 (mouse)Not determined156564117599641298Mouse
4141921Pstc3_mperiosteal circumference 3 (mouse)Not determined1567386497101386646Mouse
1300627Sluc26_msusceptibility to lung cancer 26 (mouse)Not determined1570461452104043685Mouse
1300726Pitm4_mprion incubation time 4 (mouse)Not determined1570465070104043685Mouse
1300648Dbsty4_mdiabesity 4 (mouse)Not determined1570465070104043685Mouse
14747011Mancz13_mmandible centroid size 13 (mouse)1572498466104043685Mouse
1300844Emo2_memotionality 2 (mouse)Not determined157250061076910293Mouse
1302002Cocia2_mcocaine induced activation 2 (mouse)Not determined157250061080014977Mouse
12791003Aath8_maortic arch atherosclerosis 8 (mouse)1573545941104043685Mouse
15092079Igly6_mIgG glycosylation 6, GP6 (mouse)157422869182789955Mouse
13442492Mecth2_mmechanosensation threshold 2 (mouse)157479100079503000Mouse
1301472Pain1_mpain 1 (mouse)Not determined157544899790928982Mouse

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:138
Count of miRNA genes:127
Interacting mature miRNAs:132
Transcripts:ENSMUST00000043089
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: ENSMUST00000043089   ⟹   ENSMUSP00000043668
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1576,341,720 - 76,343,649 (+)Ensembl
GRCm38.p6 Ensembl1576,457,520 - 76,459,449 (+)Ensembl
RefSeq Acc Id: ENSMUST00000229271
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1576,341,652 - 76,343,658 (+)Ensembl
GRCm38.p6 Ensembl1576,457,452 - 76,459,458 (+)Ensembl
RefSeq Acc Id: NM_198885   ⟹   NP_942588
RefSeq Status: REVIEWED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391576,341,638 - 76,343,668 (+)NCBI
GRCm381576,457,438 - 76,459,468 (+)NCBI
MGSCv371576,287,868 - 76,289,898 (+)RGD
Celera1577,957,869 - 77,959,899 (+)RGD
cM Map15 ENTREZGENE
Sequence:
RefSeq Acc Id: XM_006520660   ⟹   XP_006520723
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391576,341,594 - 76,343,263 (+)NCBI
GRCm381576,457,411 - 76,459,064 (+)NCBI
Sequence:
Reference Sequences
RefSeq Acc Id: NP_942588   ⟸   NM_198885
- UniProtKB: Q64124 (UniProtKB/Swiss-Prot),   Q53ZC3 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006520723   ⟸   XM_006520660
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: ENSMUSP00000043668   ⟸   ENSMUST00000043089
Protein Domains
bHLH

Promoters
RGD ID:6826457
Promoter ID:MM_KWN:18874
Type:CpG-Island
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:BoneMarrow_0Hour,   BoneMarrow_2Hour,   BoneMarrow_4Hour,   Brain,   Kidney,   Lung,   MEF_B4,   MEF_B6
Transcripts:NM_198885
Position:
Mouse AssemblyChrPosition (strand)Source
MGSCv361576,286,956 - 76,288,377 (+)MPROMDB
RGD ID:8684118
Promoter ID:EPDNEW_M20089
Type:single initiation site
Name:Scx_1
Description:Mus musculus scleraxis , 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
GRCm381576,457,454 - 76,457,514EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene MGI:102934 AgrOrtholog
Ensembl Genes ENSMUSG00000034161 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Protein ENSMUSP00000043668 ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSMUST00000043089 ENTREZGENE, UniProtKB/Swiss-Prot
Gene3D-CATH 4.10.280.10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
InterPro bHLH_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  HLH_DNA-bd_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report mmu:20289 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
MGD MGI:102934 ENTREZGENE
NCBI Gene 20289 ENTREZGENE
Pfam HLH UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Scx PhenoGen
PROSITE BHLH UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
SMART HLH UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF47459 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt Q53ZC3 ENTREZGENE, UniProtKB/TrEMBL
  Q64124 ENTREZGENE
  Q6P6L3_MOUSE UniProtKB/TrEMBL
  SCX_MOUSE UniProtKB/Swiss-Prot