Sms-ps (spermine synthase, pseudogene) - Rat Genome Database

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Gene: Sms-ps (spermine synthase, pseudogene) Mus musculus
Analyze
No known orthologs.
Symbol: Sms-ps
Name: spermine synthase, pseudogene
RGD ID: 2298745
MGI Page MGI
Description: Human ortholog(s) of this gene implicated in syndromic X-linked intellectual disability Snyder type. Orthologous to human SMS (spermine synthase).
Type: pseudo (Ensembl: processed_pseudogene)
RefSeq Status: INFERRED
Previously known as: ENSMUSG00000067829; Gm14680; predicted gene 14680; Sms; spermine synthase; SPMSY
RGD Orthologs
Alliance Genes
More Info homologs ...
Related Functional Gene: Sms  
Latest Assembly: GRCm39 - Mouse Genome Assembly GRCm39
Position:
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39X61,818,734 - 61,820,243 (-)NCBIGRCm39GRCm39mm39
GRCm39 EnsemblX61,819,191 - 61,820,291 (-)EnsemblGRCm39 Ensembl
GRCm38X62,775,128 - 62,776,637 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 EnsemblX62,775,585 - 62,776,685 (-)EnsemblGRCm38mm10GRCm38
MGSCv37X60,028,760 - 60,029,860 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36X60,028,303 - 60,029,919 (-)NCBIMGSCv36mm8
CeleraX49,185,038 - 49,186,652 (-)NCBICelera
Cytogenetic MapXA6NCBI
cM MapX34.57NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


References

References - curated
# Reference Title Reference Citation
1. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
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

Genomics

Variants

.
Variants in Sms-ps
45 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:191
Count of miRNA genes:179
Interacting mature miRNAs:184
Transcripts:ENSMUST00000121773, ENSMUST00000180338
Prediction methods:Miranda, Pita, 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
1357433Dbts2_mdiabetes 2 (mouse)Not determinedX7226295150107038Mouse
13208567Bmiq12_mbody mass index QTL 12 (mouse)X3526365377043606Mouse
1301009Pbwg7_mpostnatal body weight growth 7 (mouse)Not determinedX3911371473113814Mouse
4141565Pbwg21_mpostnatal body weight growth 21 (mouse)Not determinedX3911371473113814Mouse
1300794Spha2_msperm head anomaly 2 (mouse)Not determinedX3992149886260137Mouse
4142200Rtwq1_mreduced testis weight QTL 1 (mouse)Not determined4147706075477203Mouse
1301278Bdln1_mbody length 1 (mouse)Not determinedX4170210675702218Mouse
1300702Fcsa4_mfemoral cross-sectional area 4 (mouse)Not determinedX4602744480027567Mouse
4141630Gct6_mgranulosa cell tumorigenesis 6 (mouse)Not determined47179121129764756Mouse
1301351Obq6_mobesity QTL 6 (mouse)Not determinedX5077237570434751Mouse
25314311Syncl3_msynaptonemal complex length 3 (mouse)X5198887789743606Mouse
4142286Pubt1_mpubertal timing 1 (mouse)Not determined5241220061880496Mouse
4141126Lvic5_mliver iron content 5 (mouse)Not determined5241220063027567Mouse
13824980Ferq1_mgenetic fertility QTL 1 (mouse)X54045360148782996Mouse
10412108Desp5_mdespair 5 (mouse)Not determinedX5472235188722351Mouse
13464140Hdlq108_mHDL QTL 108 (mouse)X5777196091771960Mouse
12880401Emlq3_memotional learning QTL 3 (mouse)X5799218370090431Mouse
25314316Mlh1fc3_mMLH1 foci count 3 (mouse)X6134360689843606Mouse

Markers in Region
Sms  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm38X62,775,668 - 62,776,167UniSTSGRCm38
MGSCv37X153,903,661 - 153,904,010UniSTSGRCm37
MGSCv37X153,907,903 - 153,908,080UniSTSGRCm37
MGSCv37X153,885,242 - 153,885,698UniSTSGRCm37
MGSCv37X153,898,227 - 153,898,469UniSTSGRCm37
MGSCv37X153,930,120 - 153,930,780UniSTSGRCm37
CeleraX49,185,576 - 49,186,075UniSTS
Cytogenetic MapXA6UniSTS
Cytogenetic MapXF4UniSTS
cM MapX65.45UniSTS
cM MapX65.45UniSTS
cM MapX65.45UniSTS
cM MapX65.45UniSTS
cM MapX65.45UniSTS
cM MapX65.45UniSTS
Sms  
Mouse AssemblyChrPosition (strand)SourceJBrowse
Cytogenetic MapXF4UniSTS
Cytogenetic MapXA6UniSTS


Expression


Sequence


Reference Sequences
RefSeq Acc Id: ENSMUST00000121773
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 EnsemblX61,819,191 - 61,820,291 (-)Ensembl
GRCm38.p6 EnsemblX62,775,585 - 62,776,685 (-)Ensembl
RefSeq Acc Id: XM_001473434   ⟹   XP_001473484
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38X62,775,128 - 62,776,738 (-)NCBI
MGSCv37X60,028,760 - 60,029,860 (-)RGD
cM MapX ENTREZGENE
Sequence:

Additional Information

Database Acc Id Source(s)
AGR Gene MGI:3705601 AgrOrtholog
Ensembl Genes ENSMUSG00000081752 Ensembl
MGD MGI:3705601 ENTREZGENE
NCBI Gene 671878 ENTREZGENE
PhenoGen Sms-ps PhenoGen


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2017-05-23 Sms-ps  spermine synthase, pseudogene  Gm14680  predicted gene 14680  Symbol and/or name change 5135510 APPROVED