LSM12 (LSM12 homolog) - Rat Genome Database

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Gene: LSM12 (LSM12 homolog) Chlorocebus sabaeus
Analyze
Symbol: LSM12
Name: LSM12 homolog
RGD ID: 18690947
Description: ENCODES a protein that exhibits RNA binding (inferred); ASSOCIATED WITH genetic disease (ortholog); GRN-related frontotemporal lobar degeneration with TDP43 inclusions (ortholog); FOUND IN cytoplasm (inferred)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: protein LSM12 homolog
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: ChlSab1.1 - Green Monkey 1.1 Assembly
Position:
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11662,326,675 - 62,360,150 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1662,326,740 - 62,359,696 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366607733,100,227 - 33,135,239 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
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
cytoplasm  (IEA)

Molecular Function

References
Additional References at PubMed
PMID:22301074  


Genomics

Comparative Map Data
LSM12
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11662,326,675 - 62,360,150 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1662,326,740 - 62,359,696 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366607733,100,227 - 33,135,239 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
LSM12
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381744,034,328 - 44,067,587 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1744,034,328 - 44,067,619 (-)EnsemblGRCh38hg38GRCh38
GRCh371742,111,696 - 42,144,955 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361739,467,530 - 39,499,531 (-)NCBINCBI36Build 36hg18NCBI36
Celera1738,820,096 - 38,853,084 (-)NCBICelera
Cytogenetic Map17q21.31NCBI
HuRef1737,876,329 - 37,908,918 (-)NCBIHuRef
CHM1_11742,347,441 - 42,380,362 (-)NCBICHM1_1
T2T-CHM13v2.01744,886,845 - 44,920,099 (-)NCBIT2T-CHM13v2.0
Lsm12
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm3911102,053,323 - 102,077,089 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl11102,053,323 - 102,076,122 (-)EnsemblGRCm39 Ensembl
GRCm3811102,162,497 - 102,186,268 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl11102,162,497 - 102,185,296 (-)EnsemblGRCm38mm10GRCm38
MGSCv3711102,024,803 - 102,046,570 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv3611101,979,579 - 102,001,346 (-)NCBIMGSCv36mm8
Celera11113,869,300 - 113,891,146 (-)NCBICelera
Cytogenetic Map11DNCBI
cM Map1165.6NCBI
Lsm12
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81087,618,518 - 87,640,556 (-)NCBIGRCr8
mRatBN7.21087,118,334 - 87,140,395 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1087,118,416 - 87,140,396 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1092,148,053 - 92,170,083 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01091,619,965 - 91,641,988 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01087,013,277 - 87,035,302 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01090,105,562 - 90,127,600 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1090,105,562 - 90,127,600 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01089,892,925 - 89,914,903 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41091,231,492 - 91,253,929 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11091,247,327 - 91,268,256 (-)NCBI
Celera1085,833,909 - 85,856,332 (-)NCBICelera
Cytogenetic Map10q32.1NCBI
Lsm12
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495545117,195,287 - 17,213,547 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495545117,194,409 - 17,213,547 (-)NCBIChiLan1.0ChiLan1.0
LSM12
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21920,839,637 - 20,872,260 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11722,803,974 - 22,836,587 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01713,329,723 - 13,361,445 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11713,496,902 - 13,528,626 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1713,497,042 - 13,527,055 (+)Ensemblpanpan1.1panPan2
LSM12
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1919,306,421 - 19,328,278 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl919,306,461 - 19,328,050 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha918,696,520 - 18,719,504 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0920,001,741 - 20,024,746 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl920,001,790 - 20,024,822 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1918,854,833 - 18,877,815 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0919,038,057 - 19,061,012 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0919,182,875 - 19,206,070 (+)NCBIUU_Cfam_GSD_1.0
Lsm12
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440560218,643,736 - 18,671,164 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_004936541523,207 - 550,917 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_004936541523,434 - 550,855 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
LSM12
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1219,128,654 - 19,152,684 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11219,128,630 - 19,154,687 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21219,386,440 - 19,388,992 (+)NCBISscrofa10.2Sscrofa10.2susScr3
Lsm12
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_004624795846,395 - 866,092 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_004624795846,413 - 864,182 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2


Expression


RNA-SEQ Expression
High: > 1000 TPM value   Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM   Below Cutoff: < 0.5 TPM

endocrine system hemolymphoid system nervous system
High
Medium 36 17 60
Low 3
Below cutoff

Sequence

Nucleotide Sequences
RefSeq Transcripts XM_008012476 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide JACDXN010000045 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSCSAT00000001514   ⟹   ENSCSAP00000014564
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
ChlSab1.1 Ensembl1662,326,740 - 62,359,696 (+)Ensembl
RefSeq Acc Id: XM_008012476   ⟹   XP_008010667
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
ChlSab1.11662,326,675 - 62,360,150 (+)NCBI
Vero_WHO_p1.0NW_02366607733,100,227 - 33,135,239 (+)NCBI
Sequence:
Protein Sequences
Protein RefSeqs XP_008010667 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSCSAP00000014564
  ENSCSAP00000014564.1
Reference Protein Sequences
RefSeq Acc Id: XP_008010667   ⟸   XM_008012476
- UniProtKB: A0A0D9S125 (UniProtKB/TrEMBL)
RefSeq Acc Id: ENSCSAP00000014564   ⟸   ENSCSAT00000001514


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSCSAG00000003486 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSCSAT00000001514.1 UniProtKB/TrEMBL
InterPro Anticodon-binding_dom UniProtKB/TrEMBL
  IPR047574 UniProtKB/TrEMBL
  IPR047575 UniProtKB/TrEMBL
  Lsm12-like UniProtKB/TrEMBL
  LSM12_LSM UniProtKB/TrEMBL
KEGG Report csab:103243338 UniProtKB/TrEMBL
NCBI Gene LSM12 ENTREZGENE
PANTHER PROTEIN LSM12 HOMOLOG UniProtKB/TrEMBL
  PTHR13542 UniProtKB/TrEMBL
Pfam LSM12_LSM UniProtKB/TrEMBL
  PF09793 UniProtKB/TrEMBL
PROSITE PS52001 UniProtKB/TrEMBL
  PS52002 UniProtKB/TrEMBL
SMART SM00995 UniProtKB/TrEMBL
UniProt A0A0D9S125 ENTREZGENE, UniProtKB/TrEMBL