Lsm4 (LSM4 homolog, U6 small nuclear RNA and mRNA degradation associated) - 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: Lsm4 (LSM4 homolog, U6 small nuclear RNA and mRNA degradation associated) Mus musculus
Analyze
Symbol: Lsm4
Name: LSM4 homolog, U6 small nuclear RNA and mRNA degradation associated
RGD ID: 1315633
MGI Page MGI
Description: Predicted to enable PH domain binding activity and U6 snRNA binding activity. Predicted to be involved in P-body assembly and spliceosomal snRNP assembly. Predicted to act upstream of or within RNA splicing and mRNA processing. Predicted to be located in cytosol; membrane; and nucleoplasm. Predicted to be part of Lsm2-8 complex; U2-type precatalytic spliceosome; and spliceosomal snRNP complex. Predicted to be active in P-body. Is expressed in several structures, including branchial arch; central nervous system; jaw; limb; and sensory organ. Orthologous to human LSM4 (LSM4 homolog, U6 small nuclear RNA and mRNA degradation associated).
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: LSM4 homolog, U6 small nuclear RNA associated; U6 snRNA-associated SM-like protein 4; U6 snRNA-associated Sm-like protein LSm4
RGD Orthologs
Human
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: GRCm39 - Mouse Genome Assembly GRCm39
Position:
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39871,124,663 - 71,131,402 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl871,125,898 - 71,131,402 (+)EnsemblGRCm39 Ensembl
GRCm38870,673,231 - 70,678,752 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl870,673,248 - 70,678,752 (+)EnsemblGRCm38mm10GRCm38
MGSCv37873,197,130 - 73,202,651 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36873,602,381 - 73,607,741 (+)NCBIMGSCv36mm8
Celera873,229,842 - 73,235,362 (+)NCBICelera
Cytogenetic Map8B3.3NCBI
cM Map834.15NCBI
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
1,2-dimethylhydrazine  (EXP)
17alpha-ethynylestradiol  (EXP)
17beta-estradiol  (ISO)
2,2',4,4'-Tetrabromodiphenyl ether  (EXP)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,4,6-trinitrotoluene  (ISO)
2,4-dinitrotoluene  (ISO)
2,6-dinitrotoluene  (ISO)
2-palmitoylglycerol  (ISO)
3-methylcholanthrene  (EXP)
6-propyl-2-thiouracil  (ISO)
acrylamide  (ISO)
aflatoxin B1  (ISO)
amitrole  (ISO)
antirheumatic drug  (ISO)
arsane  (ISO)
arsenic atom  (ISO)
arsenite(3-)  (ISO)
benzo[a]pyrene  (EXP,ISO)
benzo[b]fluoranthene  (EXP)
bisphenol A  (EXP,ISO)
Bisphenol B  (ISO)
bisphenol F  (ISO)
bortezomib  (ISO)
cadmium dichloride  (ISO)
chlorpyrifos  (EXP)
clobetasol  (EXP)
clofibrate  (EXP)
cobalt dichloride  (ISO)
copper(II) sulfate  (ISO)
coumestrol  (ISO)
cyclosporin A  (ISO)
dextran sulfate  (EXP)
diazinon  (ISO)
dibutyl phthalate  (EXP)
dioxygen  (EXP)
doxorubicin  (ISO)
endosulfan  (ISO)
fenthion  (EXP)
finasteride  (ISO)
flutamide  (ISO)
folic acid  (EXP)
glafenine  (ISO)
inulin  (EXP)
ivermectin  (ISO)
methidathion  (EXP)
methimazole  (ISO)
methoxychlor  (ISO)
ozone  (EXP,ISO)
paracetamol  (EXP)
perfluorooctane-1-sulfonic acid  (EXP)
phenobarbital  (ISO)
pirinixic acid  (EXP)
quercetin  (ISO)
resveratrol  (ISO)
SB 431542  (ISO)
sodium arsenite  (EXP,ISO)
sodium fluoride  (EXP)
sulfadimethoxine  (ISO)
temozolomide  (ISO)
tert-butyl hydroperoxide  (ISO)
tetrachloromethane  (EXP)
titanium dioxide  (EXP)
triptonide  (EXP)
trovafloxacin  (ISO)
tungsten  (EXP)
tunicamycin  (ISO)
valproic acid  (ISO)
vorinostat  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
Phenotype Annotations     Click to see Annotation Detail View

Mammalian Phenotype
References

References - curated
# Reference Title Reference Citation
1. Proteomic analysis of in vivo-assembled pre-mRNA splicing complexes expands the catalog of participating factors. Chen YI, etal., Nucleic Acids Res. 2007;35(12):3928-44. Epub 2007 May 30.
2. Functional annotation of a full-length mouse cDNA collection. Kawai J, etal., Nature. 2001 Feb 8;409(6821):685-90.
3. MGDs mouse GO annotations MGD data from the GO Consortium
4. MGD IEA MGD IEA
5. Analysis of the mouse transcriptome based on functional annotation of 60,770 full-length cDNAs. Okazaki Y, etal., Nature. 2002 Dec 5;420(6915):563-73.
6. KEGG Annotation Import Pipeline Pipeline to import KEGG annotations from KEGG into RGD
7. Mouse MP Annotation Import Pipeline RGD automated import pipeline
8. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
9. The spliceosome: design principles of a dynamic RNP machine. Wahl MC, etal., Cell. 2009 Feb 20;136(4):701-18. doi: 10.1016/j.cell.2009.02.009.
10. Aberrantly Methylated-Differentially Expressed Genes Identify Novel Atherosclerosis Risk Subtypes. Xue Y, etal., Front Genet. 2020 Dec 14;11:569572. doi: 10.3389/fgene.2020.569572. eCollection 2020.
Additional References at PubMed
PMID:8889548   PMID:10349636   PMID:10629062   PMID:11042159   PMID:11076861   PMID:11353399   PMID:12477932   PMID:12904583   PMID:14610273   PMID:15494374   PMID:15782199   PMID:16033648  
PMID:16141072   PMID:16141073   PMID:17967808   PMID:18799693   PMID:20059953   PMID:21267068   PMID:21677750   PMID:21873635   PMID:22639370   PMID:25288739   PMID:32325033   PMID:32839293  
PMID:34133714  


Genomics

Comparative Map Data
Lsm4
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39871,124,663 - 71,131,402 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl871,125,898 - 71,131,402 (+)EnsemblGRCm39 Ensembl
GRCm38870,673,231 - 70,678,752 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl870,673,248 - 70,678,752 (+)EnsemblGRCm38mm10GRCm38
MGSCv37873,197,130 - 73,202,651 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36873,602,381 - 73,607,741 (+)NCBIMGSCv36mm8
Celera873,229,842 - 73,235,362 (+)NCBICelera
Cytogenetic Map8B3.3NCBI
cM Map834.15NCBI
LSM4
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381918,306,236 - 18,323,076 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1918,306,236 - 18,323,112 (-)EnsemblGRCh38hg38GRCh38
GRCh371918,417,046 - 18,433,886 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361918,278,717 - 18,294,962 (-)NCBINCBI36Build 36hg18NCBI36
Build 341918,278,717 - 18,294,958NCBI
Celera1918,319,475 - 18,335,755 (-)NCBICelera
Cytogenetic Map19p13.11NCBI
HuRef1917,980,724 - 17,997,682 (-)NCBIHuRef
CHM1_11918,417,296 - 18,434,252 (-)NCBICHM1_1
T2T-CHM13v2.01918,440,354 - 18,457,193 (-)NCBIT2T-CHM13v2.0
Lsm4
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81618,789,466 - 18,795,164 (-)NCBIGRCr8
mRatBN7.21618,755,481 - 18,761,106 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1618,755,484 - 18,760,926 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1618,797,134 - 18,802,546 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01619,930,058 - 19,935,475 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01618,850,088 - 18,855,500 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01620,506,399 - 20,511,818 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1620,506,399 - 20,511,818 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01620,363,442 - 20,368,886 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41619,261,065 - 19,266,484 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11619,261,067 - 19,266,367 (-)NCBI
Celera1618,947,390 - 18,952,806 (-)NCBICelera
Cytogenetic Map16p14NCBI
Lsm4
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049555243,157,607 - 3,165,196 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049555243,157,607 - 3,165,196 (+)NCBIChiLan1.0ChiLan1.0
LSM4
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v22023,167,478 - 23,183,873 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11922,175,796 - 22,192,193 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01917,785,580 - 17,801,866 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11918,757,390 - 18,773,812 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1918,757,390 - 18,773,812 (-)Ensemblpanpan1.1panPan2
LSM4
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12044,707,460 - 44,720,490 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2044,707,460 - 44,720,490 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2044,621,620 - 44,634,648 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.02045,193,083 - 45,206,148 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2045,193,083 - 45,206,124 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12044,430,435 - 44,443,463 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02044,840,880 - 44,853,912 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02045,116,311 - 45,129,341 (+)NCBIUU_Cfam_GSD_1.0
Lsm4
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405118203,354,208 - 203,367,493 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365962,903,358 - 2,916,629 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049365962,903,363 - 2,916,629 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
LSM4
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl259,499,564 - 59,513,246 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1259,499,560 - 59,513,258 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
LSM4
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1616,783,566 - 16,800,116 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl616,782,746 - 16,800,143 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_0236660742,555,195 - 2,572,041 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Lsm4
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046249081,595,877 - 1,603,043 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046249081,595,877 - 1,603,075 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Lsm4
206 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:588
Count of miRNA genes:347
Interacting mature miRNAs:393
Transcripts:ENSMUST00000034311, ENSMUST00000146972, ENSMUST00000153689
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
1558870Eae36_mexperimental allergic encephalomyelitis susceptibility 36 (mouse)Not determined81477316071498244Mouse
1357811Orq3_movulation rate QTL 3 (mouse)Not determined83250657271740637Mouse
4140966Egq12_mearly growth QTL 12 (mouse)Not determined3250657271740637Mouse
4141437W10q14_mweight 10 weeks QTL 14 (mouse)Not determined3250657271740637Mouse
4141172W6q9_mweight 6 weeks QTL 9 (mouse)Not determined3250657271740637Mouse
4140967Bmd39_mbone mineral density 39 (mouse)Not determined832506572117965439Mouse
1558875Eae31_mexperimental allergic encephalomyelitis susceptibility 31 (mouse)Not determined835109930115563747Mouse
1301013Capsq4_mcapsaicin sensitivity related QTL 4 (mouse)Not determined83663015493455280Mouse
27226754Femd6_mfemur midshaft diameter 6, 10 week (mouse)837867154110326632Mouse
12904744Carcdq1_mcardiac collagen deposition QTL 1 (mouse)84016229795416226Mouse
1301544Iba3_minduction of brown adipocytes 3 (mouse)Not determined84474791478748059Mouse
10766453Char11_mP. chabaudi malaria resistance QTL 11 (mouse)84809006482090180Mouse
1301717Adip4_madiposity 4 (mouse)Not determined84809006482090180Mouse
1301441Skull11_mskull morphology 11 (mouse)Not determined84819016882190288Mouse
1357715Alaa3_malopecia areata 3 (mouse)Not determined84924559183245673Mouse
14746987Manh64_mmandible shape 64 (mouse)85050595884505958Mouse
14747005Mancz7_mmandible centroid size 7 (mouse)85050595884505958Mouse
14700686Civq3_mcerebral infarct volume QTL 3 (mouse)85233484386334843Mouse
1301506Aevm1_mautoimmune extremity vasculitis in MRL mice 1 (mouse)Not determined85474046188740637Mouse
1301952Im3_mimmunoregulatory 3 (mouse)Not determined85515925889159407Mouse
10412287Carg3_mCandida albicans resistance gene 3 (mouse)Not determined85629887290298872Mouse
11353828Gf7_mgonadal fat pad weight 7 (mouse)85892810792928107Mouse
10043975Obq31_mobesity QTL 31 (mouse)Not determined85913640493136404Mouse
1301688Orch6_mautoimmune orchitis resistance 6 (mouse)Not determined86151347995513605Mouse
4141285Tgq18_mtriglyceride QTL 18 (mouse)Not determined6418673698186736Mouse
4141797Skmw16_mskeletal muscle weight 16 (mouse)Not determined86466617698666325Mouse
11039503Ccc4_mcolitis susceptibility in the Collaborative Cross 4 (mouse)86517423778002730Mouse
1357787Vtbt5_mvertebral trabecular bone trait 5 (mouse)Not determined866084397100084549Mouse
10043992Hbnr11_mHeligmosomoides bakeri nematode resistance 11 (mouse)Not determined866326836100326976Mouse
10766466Char12_mP. chabaudi malaria resistance QTL 12 (mouse)86872247983326976Mouse
4142283Imraq2_mimmune response to AAV2 QTL 2 (mouse)Not determined871032003105032123Mouse
1301767Fcsa2_mfemoral cross-sectional area 2 (mouse)Not determined871032003105032123Mouse

Markers in Region
Lsm4  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm38870,677,849 - 70,678,688UniSTSGRCm38
MGSCv37873,201,748 - 73,202,587UniSTSGRCm37
Celera873,234,459 - 73,235,298UniSTS
Cytogenetic Map8B3.3UniSTS
cM Map8 UniSTS


Expression


Sequence

Nucleotide Sequences
RefSeq Transcripts NM_001359042 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_015816 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_030243665 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AC162446 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AC166931 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AJ249439 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK003847 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK010910 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK089028 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK143470 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK167784 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK179003 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK185496 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC026747 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CA322716 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CD776868 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH466569 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSMUST00000034311   ⟹   ENSMUSP00000034311
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl871,125,898 - 71,131,402 (+)Ensembl
GRCm38.p6 Ensembl870,673,248 - 70,678,752 (+)Ensembl
RefSeq Acc Id: ENSMUST00000146972   ⟹   ENSMUSP00000121019
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl871,126,029 - 71,130,766 (+)Ensembl
GRCm38.p6 Ensembl870,673,379 - 70,678,116 (+)Ensembl
RefSeq Acc Id: ENSMUST00000153689
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl871,130,315 - 71,130,766 (+)Ensembl
GRCm38.p6 Ensembl870,677,665 - 70,678,116 (+)Ensembl
RefSeq Acc Id: ENSMUST00000210071   ⟹   ENSMUSP00000147320
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl871,126,035 - 71,131,169 (+)Ensembl
GRCm38.p6 Ensembl870,673,385 - 70,678,519 (+)Ensembl
RefSeq Acc Id: ENSMUST00000210987   ⟹   ENSMUSP00000147637
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl871,126,082 - 71,131,396 (+)Ensembl
GRCm38.p6 Ensembl870,673,432 - 70,678,746 (+)Ensembl
RefSeq Acc Id: NM_001359042   ⟹   NP_001345971
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39871,125,881 - 71,131,402 (+)NCBI
GRCm38870,673,231 - 70,678,752 (+)NCBI
Sequence:
RefSeq Acc Id: NM_015816   ⟹   NP_056631
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39871,125,881 - 71,131,402 (+)NCBI
GRCm38870,673,231 - 70,678,752 (+)ENTREZGENE
MGSCv37873,197,130 - 73,202,651 (+)RGD
Celera873,229,842 - 73,235,362 (+)RGD
cM Map8 ENTREZGENE
Sequence:
RefSeq Acc Id: XM_030243665   ⟹   XP_030099525
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39871,124,663 - 71,131,402 (+)NCBI
GRCm38870,673,231 - 70,678,752 (+)NCBI
Sequence:
Reference Protein Sequences
RefSeq Acc Id: NP_056631   ⟸   NM_015816
- Peptide Label: isoform 1
- UniProtKB: Q9CY46 (UniProtKB/TrEMBL),   Q9D181 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_030099525   ⟸   XM_030243665
- Peptide Label: isoform X1
- UniProtKB: Q9CY46 (UniProtKB/TrEMBL),   Q9D181 (UniProtKB/TrEMBL)
RefSeq Acc Id: NP_001345971   ⟸   NM_001359042
- Peptide Label: isoform 2
- UniProtKB: Q9D181 (UniProtKB/TrEMBL)
RefSeq Acc Id: ENSMUSP00000034311   ⟸   ENSMUST00000034311
RefSeq Acc Id: ENSMUSP00000121019   ⟸   ENSMUST00000146972
RefSeq Acc Id: ENSMUSP00000147637   ⟸   ENSMUST00000210987
RefSeq Acc Id: ENSMUSP00000147320   ⟸   ENSMUST00000210071
Protein Domains
Sm

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q9QXA5-F1-model_v2 AlphaFold Q9QXA5 1-137 view protein structure

Promoters
RGD ID:8667333
Promoter ID:EPDNEW_M11698
Type:initiation region
Name:Lsm4_1
Description:Mus musculus LSM4 homolog, U6 small nuclear RNA and mRNA degradationassociated , transcript variant 1, 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
GRCm38870,673,379 - 70,673,439EPDNEW
RGD ID:6843420
Promoter ID:MM_KWN:54726
Type:CpG-Island
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:3T3L1_Day0,   3T3L1_Day1,   3T3L1_Day2,   3T3L1_Day3,   3T3L1_Day4,   3T3L1_Day6,   BoneMarrow_0Hour,   BoneMarrow_2Hour,   BoneMarrow_4Hour,   Brain,   ES_Cell,   Kidney,   Liver,   Lung,   MEF_B4,   MEF_B6,   Spleen
Transcripts:NM_015816,   OTTMUST00000074175,   UC009MBD.1
Position:
Mouse AssemblyChrPosition (strand)Source
MGSCv36873,197,056 - 73,197,627 (+)MPROMDB
RGD ID:6843419
Promoter ID:MM_KWN:54727
Type:CpG-Island
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:Kidney,   Spleen
Transcripts:OTTMUST00000074176
Position:
Mouse AssemblyChrPosition (strand)Source
MGSCv36873,201,616 - 73,202,116 (+)MPROMDB

Additional Information

Database Acc Id Source(s)
AGR Gene MGI:1354692 AgrOrtholog
Ensembl Genes ENSMUSG00000031848 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSMUST00000034311 ENTREZGENE
  ENSMUST00000034311.15 UniProtKB/TrEMBL
  ENSMUST00000146972.3 UniProtKB/TrEMBL
  ENSMUST00000210071 ENTREZGENE
  ENSMUST00000210071.2 UniProtKB/TrEMBL
  ENSMUST00000210987.2 UniProtKB/TrEMBL
Gene3D-CATH 2.30.30.100 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
InterPro IPR047575 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Lsm4 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  LSm4/Sm_D1/D3 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  LSM_dom_euk/arc UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  LSM_dom_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report mmu:50783 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
MGD MGI:1354692 ENTREZGENE
NCBI Gene 50783 ENTREZGENE
PANTHER PTHR23338 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  U6 SNRNA-ASSOCIATED SM-LIKE PROTEIN LSM4 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam LSM UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Lsm4 PhenoGen
PROSITE PS52002 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
SMART SM00651 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF50182 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A0A1B0GQZ9_MOUSE UniProtKB/TrEMBL
  A0A1B0GRR9_MOUSE UniProtKB/TrEMBL
  D3YTP8_MOUSE UniProtKB/TrEMBL
  LSM4_MOUSE UniProtKB/Swiss-Prot
  Q9CY46 ENTREZGENE, UniProtKB/TrEMBL
  Q9D181 ENTREZGENE, UniProtKB/TrEMBL
  Q9QXA5 ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-02-02 Lsm4  LSM4 homolog, U6 small nuclear RNA and mRNA degradation associated    LSM4 homolog, U6 small nuclear RNA associated (S. cerevisiae)  Symbol and/or name change 5135510 APPROVED