Lsm2 (LSM2 homolog, U6 small nuclear RNA and mRNA degradation associated) - Rat Genome Database

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Advanced Search (OLGA)
Gene: Lsm2 (LSM2 homolog, U6 small nuclear RNA and mRNA degradation associated) Rattus norvegicus
Analyze
Symbol: Lsm2
Name: LSM2 homolog, U6 small nuclear RNA and mRNA degradation associated
RGD ID: 1598536
Description: Predicted to enable protein kinase binding activity and small GTPase binding activity. Predicted to contribute to RNA binding activity. Predicted to be involved in mRNA splicing, via spliceosome. Predicted to act upstream of or within mRNA catabolic process and spliceosomal tri-snRNP complex assembly. Predicted to be located in cytoplasm and nucleoplasm. Predicted to be part of Lsm1-7-Pat1 complex; Lsm2-8 complex; and nucleus. Predicted to be active in P-body. Orthologous to human LSM2 (LSM2 homolog, U6 small nuclear RNA and mRNA degradation associated); PARTICIPATES IN spliceosome pathway; RNA degradation pathway; INTERACTS WITH 17beta-estradiol; 2,3,7,8-tetrachlorodibenzodioxine; 6-propyl-2-thiouracil.
Type: protein-coding
Previously known as: G7b; LSM2 homolog, U6 small nuclear RNA associated; LSM2 homolog, U6 small nuclear RNA associated (S. cerevisiae); LSM2 U6 small nuclear RNA and mRNA degradation associated; U6 snRNA-associated Sm-like protein LSm2
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Related Pseudogenes: Lsm2-ps1  
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8203,848,120 - 3,853,298 (-)NCBIGRCr8
mRatBN7.2203,843,467 - 3,847,217 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl203,843,466 - 3,847,266 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx204,542,954 - 4,546,705 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0203,905,011 - 3,908,762 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0204,442,938 - 4,446,707 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0204,966,817 - 4,970,567 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl204,966,817 - 4,970,568 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0207,040,080 - 7,043,830 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Celera204,179,296 - 4,183,046 (+)NCBICelera
Cytogenetic Map20p12NCBI
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  (ISO)
17beta-estradiol  (EXP,ISO)
2,2',4,4'-Tetrabromodiphenyl ether  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,4,6-tribromophenol  (ISO)
2-methylcholine  (ISO)
3,3',5,5'-tetrabromobisphenol A  (ISO)
4,4'-diaminodiphenylmethane  (ISO)
4-hydroxyphenyl retinamide  (ISO)
6-propyl-2-thiouracil  (EXP)
acrylamide  (ISO)
all-trans-retinoic acid  (ISO)
amitrole  (EXP)
antirheumatic drug  (ISO)
arsane  (ISO)
arsenic atom  (ISO)
arsenous acid  (ISO)
benzo[a]pyrene  (ISO)
benzo[a]pyrene diol epoxide I  (ISO)
bisphenol A  (EXP,ISO)
Bisphenol B  (ISO)
cadmium dichloride  (ISO)
carbon nanotube  (ISO)
chromium(6+)  (ISO)
cisplatin  (ISO)
copper atom  (EXP)
copper(0)  (EXP)
copper(II) sulfate  (ISO)
coumestrol  (ISO)
DDE  (ISO)
decabromodiphenyl ether  (ISO)
deguelin  (ISO)
diarsenic trioxide  (ISO)
Dibutyl phosphate  (ISO)
dibutyl phthalate  (ISO)
doxorubicin  (ISO)
endosulfan  (EXP)
Enterolactone  (ISO)
enzyme inhibitor  (ISO)
fenthion  (ISO)
finasteride  (EXP)
flutamide  (EXP)
folic acid  (ISO)
fulvestrant  (ISO)
hydrogen peroxide  (ISO)
ivermectin  (ISO)
lidocaine  (EXP)
manganese atom  (ISO)
manganese(0)  (ISO)
manganese(II) chloride  (ISO)
methidathion  (ISO)
methimazole  (EXP)
methyl methanesulfonate  (ISO)
oxaliplatin  (EXP)
ozone  (ISO)
paracetamol  (ISO)
phenobarbital  (ISO)
pirinixic acid  (ISO)
pregnenolone 16alpha-carbonitrile  (EXP)
pyrimidifen  (ISO)
rotenone  (ISO)
SB 431542  (ISO)
sodium arsenate  (ISO)
sodium arsenite  (ISO)
sulfadimethoxine  (EXP)
temozolomide  (ISO)
tetrachloromethane  (EXP,ISO)
thiram  (ISO)
titanium dioxide  (ISO)
topotecan  (EXP)
tributylstannane  (EXP)
trimellitic anhydride  (ISO)
triptonide  (ISO)
Yessotoxin  (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
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. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
3. KEGG Annotation Import Pipeline Pipeline to import KEGG annotations from KEGG into RGD
4. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
5. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
6. Comprehensive gene review and curation RGD comprehensive gene curation
7. 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.
Additional References at PubMed
PMID:15060004  


Genomics

Comparative Map Data
Lsm2
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8203,848,120 - 3,853,298 (-)NCBIGRCr8
mRatBN7.2203,843,467 - 3,847,217 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl203,843,466 - 3,847,266 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx204,542,954 - 4,546,705 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0203,905,011 - 3,908,762 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0204,442,938 - 4,446,707 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0204,966,817 - 4,970,567 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl204,966,817 - 4,970,568 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0207,040,080 - 7,043,830 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Celera204,179,296 - 4,183,046 (+)NCBICelera
Cytogenetic Map20p12NCBI
LSM2
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38631,797,396 - 31,806,966 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl631,797,396 - 31,806,966 (-)EnsemblGRCh38hg38GRCh38
GRCh37631,765,173 - 31,774,743 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36631,873,152 - 31,882,722 (-)NCBINCBI36Build 36hg18NCBI36
Build 34631,873,153 - 31,882,722NCBI
Celera633,363,418 - 33,372,989 (-)NCBICelera
Cytogenetic Map6p21.33NCBI
HuRef631,551,575 - 31,561,169 (-)NCBIHuRef
CHM1_1631,767,304 - 31,776,896 (-)NCBICHM1_1
T2T-CHM13v2.0631,650,444 - 31,660,015 (-)NCBIT2T-CHM13v2.0
Lsm2
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391735,200,830 - 35,204,867 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1735,200,838 - 35,204,867 (+)EnsemblGRCm39 Ensembl
GRCm381734,981,854 - 34,985,891 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1734,981,862 - 34,985,891 (+)EnsemblGRCm38mm10GRCm38
MGSCv371735,118,805 - 35,122,836 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361734,590,193 - 34,593,947 (+)NCBIMGSCv36mm8
Celera1738,078,086 - 38,082,117 (+)NCBICelera
Cytogenetic Map17B1NCBI
cM Map1718.52NCBI
Lsm2
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_004955437320,768 - 325,810 (-)EnsemblChiLan1.0
ChiLan1.0NW_004955437321,367 - 325,556 (-)NCBIChiLan1.0ChiLan1.0
LSM2
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2546,274,383 - 46,284,149 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1642,235,872 - 42,245,651 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0631,458,514 - 31,468,126 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1632,344,669 - 32,354,630 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl632,344,669 - 32,354,631 (-)Ensemblpanpan1.1panPan2
LSM2
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1121,270,328 - 1,279,269 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha121,406,006 - 1,414,971 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0121,412,754 - 1,421,913 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl121,412,799 - 1,421,723 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1121,271,968 - 1,280,932 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0121,339,129 - 1,348,075 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0121,407,060 - 1,412,446 (-)NCBIUU_Cfam_GSD_1.0
Lsm2
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494635,809,400 - 35,815,272 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049367271,745,942 - 1,751,959 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049367271,746,072 - 1,751,944 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
LSM2
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl723,900,395 - 23,908,490 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1723,900,385 - 23,908,523 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
LSM2
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11740,214,726 - 40,226,753 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1740,214,771 - 40,226,545 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366604431,709,420 - 31,721,416 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Lsm2
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462475424,425,463 - 24,429,916 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462475424,425,503 - 24,429,916 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Lsm2
48 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:41
Count of miRNA genes:40
Interacting mature miRNAs:41
Transcripts:ENSRNOT00000070846
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.


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
61472Aia1Adjuvant induced arthritis QTL 1180.001joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)2026463954597031Rat
2306850Pia40Pristane induced arthritis QTL 400.0001joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)2015279595304575Rat
1641915Colcr9Colorectal carcinoma resistance QTL 92.970.0024intestine integrity trait (VT:0010554)benign colorectal tumor number (CMO:0001795)20153065546530655Rat
2317057Aia27Adjuvant induced arthritis QTL 272.83joint integrity trait (VT:0010548)right rear ankle joint diameter (CMO:0002150)20289259726381954Rat
7387283Uae44Urinary albumin excretion QTL 440.1712urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)20126123605Rat
7411668Foco32Food consumption QTL 3280.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)20136600972Rat
2305926Iddm37Insulin dependent diabetes mellitus QTL 376blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)20152784246527842Rat
1354642Despr15Despair related QTL 150.0027locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)20124159021Rat
1600382Edcs3Endometrial carcinoma susceptibility QTL33.50.003uterus morphology trait (VT:0001120)percentage of study population developing endometrioid carcinoma during a period of time (CMO:0001759)20125159026Rat
61448Ciaa1CIA Autoantibody QTL 1300.001blood autoantibody amount (VT:0003725)calculated serum anti-rat type 2 collagen autoantibody titer (CMO:0001281)2026463954597031Rat
1331772Cdexp2CD45RC expression in CD8 T cells QTL 25.7CD8-positive T cell quantity (VT:0008077)blood CD45RC(high) CD8 T cell count to CD45RC(low) CD8 T cell count ratio (CMO:0001990)20362164910078919Rat
8694189Bw153Body weight QTL 1533.130.001body mass (VT:0001259)body weight gain (CMO:0000420)20129191651Rat
1300152Bp195Blood pressure QTL 1953.46arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2036216499243559Rat
9590109Sffal8Serum free fatty acids level QTL 85.320.01blood free fatty acid amount (VT:0001553)plasma free fatty acids level (CMO:0000546)20129191651Rat
9590275Scort15Serum corticosterone level QTL 153.480.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)20129191651Rat
9589155Insul32Insulin level QTL 326.380.001blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)20129191651Rat
7411650Foco23Food consumption QTL 2320.70.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)20129191651Rat
2317851Alcrsp22Alcohol response QTL 223.20.05response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)20127339237Rat
1598816Memor12Memory QTL 122.4exploratory behavior trait (VT:0010471)average horizontal distance between subject and target during voluntary locomotion in an experimental apparatus (CMO:0002674)20260683647606836Rat
61432Cia1Collagen induced arthritis QTL 1joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)20362165614101050Rat
1641893Alcrsp7Alcohol response QTL 7response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)20127339237Rat
6893685Bw111Body weight QTL 1112.70.004body mass (VT:0001259)body weight (CMO:0000012)20132578807Rat
9590252Scort12Serum corticosterone level QTL 1220.460.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)20136600972Rat
737973Pia21Pristane induced arthritis QTL 214.8joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)2036216564606812Rat

Markers in Region
RH127999  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2203,843,575 - 3,843,769 (-)MAPPERmRatBN7.2
Rnor_6.0204,970,265 - 4,970,458NCBIRnor6.0
Rnor_5.0207,043,528 - 7,043,721UniSTSRnor5.0
Celera204,182,744 - 4,182,937UniSTS
RH 3.4 Map2051.62UniSTS
Cytogenetic Map20p12UniSTS


Expression

RNA-SEQ Expression

alimentary part of gastrointestinal system
appendage
circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
integumental system
mesenchyme
mesoderm
nervous system
renal system
reproductive system
respiratory system
9 11 49 113 91 90 59 25 59 6 218 97 93 45 60 31

Sequence


Ensembl Acc Id: ENSRNOT00000070846   ⟹   ENSRNOP00000065463
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl203,843,466 - 3,846,950 (-)Ensembl
Rnor_6.0 Ensembl204,967,194 - 4,970,226 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000081265   ⟹   ENSRNOP00000074699
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl203,843,468 - 3,847,244 (-)Ensembl
Rnor_6.0 Ensembl204,966,817 - 4,970,568 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000081527   ⟹   ENSRNOP00000075338
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl203,843,466 - 3,847,266 (-)Ensembl
Rnor_6.0 Ensembl204,966,817 - 4,970,382 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000119798   ⟹   ENSRNOP00000097583
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl203,843,808 - 3,847,185 (-)Ensembl
RefSeq Acc Id: NM_001004073   ⟹   NP_001004073
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8203,848,120 - 3,851,493 (-)NCBI
mRatBN7.2203,843,467 - 3,846,840 (-)NCBI
Rnor_6.0204,967,194 - 4,970,567 (+)NCBI
Rnor_5.0207,040,080 - 7,043,830 (+)NCBI
Celera204,179,673 - 4,183,046 (+)NCBI
Sequence:
RefSeq Acc Id: NM_001165922   ⟹   NP_001159394
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8203,848,120 - 3,851,870 (-)NCBI
mRatBN7.2203,843,467 - 3,847,217 (-)NCBI
Rnor_6.0204,966,817 - 4,970,567 (+)NCBI
Rnor_5.0207,040,080 - 7,043,830 (+)NCBI
Celera204,179,296 - 4,183,046 (+)NCBI
Sequence:
RefSeq Acc Id: XM_063279506   ⟹   XP_063135576
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8203,848,687 - 3,853,298 (-)NCBI
Protein Sequences
GenBank Protein EDL83479 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000065463.1
  ENSRNOP00000074699.1
  ENSRNOP00000075338.2
  ENSRNOP00000097583.1
RefSeq Acc Id: NP_001159394   ⟸   NM_001165922
- Peptide Label: isoform 2
- Sequence:
RefSeq Acc Id: NP_001004073   ⟸   NM_001004073
- Peptide Label: isoform 1
- Sequence:
Ensembl Acc Id: ENSRNOP00000065463   ⟸   ENSRNOT00000070846
Ensembl Acc Id: ENSRNOP00000075338   ⟸   ENSRNOT00000081527
Ensembl Acc Id: ENSRNOP00000074699   ⟸   ENSRNOT00000081265
Ensembl Acc Id: ENSRNOP00000097583   ⟸   ENSRNOT00000119798
RefSeq Acc Id: XP_063135576   ⟸   XM_063279506
- Peptide Label: isoform X1
Protein Domains
Sm

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q6MG66-F1-model_v2 AlphaFold Q6MG66 1-131 view protein structure

Transcriptome

eQTL   View at Phenogen
WGCNA   View at Phenogen
Tissue/Strain Expression   View at Phenogen

Promoters
RGD ID:13701378
Promoter ID:EPDNEW_R11902
Type:initiation region
Name:Lsm2_1
Description:LSM2 homolog, U6 small nuclear RNA and mRNA degradation associated
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0204,966,815 - 4,966,875EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1598536 AgrOrtholog
BioCyc Gene G2FUF-4623 BioCyc
Ensembl Genes ENSRNOG00000048725 Ensembl, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000070846.3 UniProtKB/TrEMBL
  ENSRNOT00000081265.2 UniProtKB/TrEMBL
  ENSRNOT00000081527.2 UniProtKB/TrEMBL
  ENSRNOT00000119798.1 UniProtKB/TrEMBL
Gene3D-CATH 2.30.30.100 UniProtKB/TrEMBL
InterPro IPR047575 UniProtKB/TrEMBL
  LSM_domain UniProtKB/TrEMBL
  LSM_related_domain UniProtKB/TrEMBL
  U6_snRNA_Lsm2 UniProtKB/TrEMBL
KEGG Report rno:684148 UniProtKB/TrEMBL
NCBI Gene Lsm2 ENTREZGENE
PANTHER PTHR13829 UniProtKB/TrEMBL
  U6 SNRNA-ASSOCIATED SM-LIKE PROTEIN LSM2 UniProtKB/TrEMBL
Pfam LSM UniProtKB/TrEMBL
PhenoGen Lsm2 PhenoGen
PIRSF U6_snRNA_Lsm2 UniProtKB/TrEMBL
PROSITE PS52002 UniProtKB/TrEMBL
RatGTEx ENSRNOG00000048725 RatGTEx
SMART SM00651 UniProtKB/TrEMBL
Superfamily-SCOP Sm_like_riboprot UniProtKB/TrEMBL
UniProt A0A0G2K8Q7_RAT UniProtKB/TrEMBL
  A0A0G2KAB8_RAT UniProtKB/TrEMBL
  A0A8I6AT83_RAT UniProtKB/TrEMBL
  A6KTP6_RAT UniProtKB/TrEMBL
  A6KTP7_RAT UniProtKB/TrEMBL
  M0R7N1_RAT UniProtKB/TrEMBL
UniProt Secondary Q6MG66 UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2015-07-09 Lsm2  LSM2 homolog, U6 small nuclear RNA and mRNA degradation associated  Lsm2  LSM2 U6 small nuclear RNA and mRNA degradation associated  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2015-07-01 Lsm2  LSM2 U6 small nuclear RNA and mRNA degradation associated  Lsm2  LSM2 homolog, U6 small nuclear RNA associated (S. cerevisiae)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2012-07-02 Lsm2  LSM2 homolog, U6 small nuclear RNA associated (S. cerevisiae)  LOC684148  similar to snRNP core protein SMX5  Data merged from RGD:1593907 1643240 APPROVED
2006-12-03 Lsm2  LSM2 homolog, U6 small nuclear RNA associated (S. cerevisiae)      Symbol and Name status set to provisional 70820 PROVISIONAL
2006-11-20 LOC684148  similar to snRNP core protein SMX5      Symbol and Name status set to provisional 70820 PROVISIONAL