Lyrm9 (LYR motif containing 9) - 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: Lyrm9 (LYR motif containing 9) Mus musculus
Analyze
Symbol: Lyrm9
Name: LYR motif containing 9
RGD ID: 1614367
MGI Page MGI
Description: Orthologous to human LYRM9 (LYR motif containing 9).
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: 1810012P15Rik; hypothetical protein LOC66274; LYR motif-containing protein 9; UPF0631 protein C17orf108 homolog
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
GRCm391178,717,421 - 78,734,725 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1178,717,410 - 78,737,696 (+)EnsemblGRCm39 Ensembl
GRCm381178,826,595 - 78,843,899 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1178,826,584 - 78,846,870 (+)EnsemblGRCm38mm10GRCm38
MGSCv371178,640,097 - 78,657,401 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361178,642,799 - 78,654,461 (+)NCBIMGSCv36mm8
Celera1188,458,955 - 88,476,259 (+)NCBICelera
Cytogenetic Map11B5NCBI
cM Map1146.74NCBI
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

Biological Process

Cellular Component

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. Mouse MP Annotation Import Pipeline RGD automated import 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
Additional References at PubMed
PMID:8889548   PMID:10349636   PMID:11042159   PMID:11076861   PMID:11217851   PMID:12466851   PMID:12477932   PMID:14610273   PMID:15782199   PMID:16141072   PMID:16141073   PMID:18799693  
PMID:30973865  


Genomics

Comparative Map Data
Lyrm9
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391178,717,421 - 78,734,725 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1178,717,410 - 78,737,696 (+)EnsemblGRCm39 Ensembl
GRCm381178,826,595 - 78,843,899 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1178,826,584 - 78,846,870 (+)EnsemblGRCm38mm10GRCm38
MGSCv371178,640,097 - 78,657,401 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361178,642,799 - 78,654,461 (+)NCBIMGSCv36mm8
Celera1188,458,955 - 88,476,259 (+)NCBICelera
Cytogenetic Map11B5NCBI
cM Map1146.74NCBI
LYRM9
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381727,878,358 - 27,893,365 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1727,878,314 - 27,894,752 (-)EnsemblGRCh38hg38GRCh38
GRCh371726,205,384 - 26,220,391 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361723,229,467 - 23,244,536 (-)NCBINCBI36Build 36hg18NCBI36
Celera1723,067,202 - 23,082,270 (-)NCBICelera
Cytogenetic Map17q11.2NCBI
HuRef1722,412,270 - 22,427,337 (-)NCBIHuRef
CHM1_11726,268,059 - 26,283,099 (-)NCBICHM1_1
T2T-CHM13v2.01728,819,756 - 28,834,759 (-)NCBIT2T-CHM13v2.0
Lyrm9
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81064,223,732 - 64,237,791 (+)NCBIGRCr8
mRatBN7.21063,725,718 - 63,739,772 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1063,725,743 - 63,739,772 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1068,355,673 - 68,369,733 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01067,861,022 - 67,875,082 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01063,330,953 - 63,344,941 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01066,099,478 - 66,113,559 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1066,099,531 - 66,113,559 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01065,531,688 - 65,545,716 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41064,947,045 - 64,960,104 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera1062,701,485 - 62,715,518 (+)NCBICelera
Cytogenetic Map10q25NCBI
Lyrm9
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554815,113,810 - 5,118,198 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554815,113,810 - 5,118,141 (+)NCBIChiLan1.0ChiLan1.0
LYRM9
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21936,566,006 - 36,581,084 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11738,449,533 - 38,464,582 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01728,884,929 - 28,900,024 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11729,387,048 - 29,397,874 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1729,393,491 - 29,397,874 (+)Ensemblpanpan1.1panPan2
LYRM9
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1942,269,937 - 42,303,499 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha941,427,146 - 41,443,765 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0943,088,660 - 43,105,264 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl943,090,075 - 43,105,209 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1941,868,961 - 41,885,574 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0942,164,133 - 42,180,723 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0942,241,087 - 42,257,684 (-)NCBIUU_Cfam_GSD_1.0
Lyrm9
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440560241,302,149 - 41,316,066 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365384,180,133 - 4,193,635 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049365384,180,094 - 4,193,638 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
LYRM9
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1244,271,524 - 44,289,612 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11244,271,407 - 44,289,687 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21246,118,407 - 46,136,659 (-)NCBISscrofa10.2Sscrofa10.2susScr3
LYRM9
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11621,650,330 - 21,665,913 (-)NCBIChlSab1.1ChlSab1.1chlSab2
Vero_WHO_p1.0NW_0236660758,474,342 - 8,489,921 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Lyrm9
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_004624786618,821 - 631,478 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_004624786615,278 - 677,666 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Lyrm9
594 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:2891
Count of miRNA genes:928
Interacting mature miRNAs:1297
Transcripts:ENSMUST00000100748, ENSMUST00000141321, ENSMUST00000147875
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 (GRCm39)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
13208559Wght10_mweight 10 (mouse)11395000088890826Mouse
13208558Lgth12_mbody length 12 (mouse)11395000094890826Mouse
1300905Scc6_mcolon tumor susceptibility 6 (mouse)Not determined11688027789019734Mouse
39128214Lwq20_mliver weight QTL 20 (mouse)1112268637118022724Mouse
4141894Nidd6k_mNidd6 on KK-A (mouse)Not determined1912420496897826Mouse
10412246Dfs2_mdental fluorosis suseptibility 2 (mouse)Not determined112180736495881231Mouse
13208569Bmiq10_mbody mass index QTL 10 (mouse)113589082784890826Mouse
1301328Mol4_mmodifier of LPS-response 4 (mouse)Not determined113628257783481356Mouse
4141367Inf1_macute ozone induced inflammation (mouse)Not determined44630038113058009Mouse
1302021Nidd1n_mnon-insulin-dependent diabetes mellitus 1 in NSY (mouse)Not determined114516587379978324Mouse
1357878Mastr_mmodifier of astrocytoma (mouse)Not determined114570858189818733Mouse
1300765Bbaa4_mB.burgdorferi-associated arthritis 4 (mouse)Not determined114618516780185262Mouse
1301988Bmd11_mbone mineral density 11 (mouse)Not determined114631940780319522Mouse
1301830Ssta4_msusceptibility to Salmonella typhimurium antigens 4 (mouse)Not determined115007819184078411Mouse
13524840Ppiq9a_mprepulse inhibition QTL 9a (mouse)115249438586494385Mouse
1300774Pgia7_mproteoglycan induced arthritis 7 (mouse)Not determined115339058887390737Mouse
4141830Pregq1_mpregnancy QTL 1 (mouse)Not determined115412675283733652Mouse
4142121Tmc1m2_mTmc1 modifier 2 (mouse)Not determined1156864027114157957Mouse
1300664Etohcta9_methanol conditioned taste aversion 9 (mouse)Not determined115775466091754758Mouse
1300924Ity2_mimmunity to S. typhimurium 2 (mouse)Not determined15850803087695238Mouse
4141982Skts-fp2_mskin tumor susceptibility in FVB and PWK 2 (mouse)Not determined5871926685066529Mouse
1301987Pid3_mprior incubation determinant 3 (mouse)Not determined116168682088699728Mouse
1301319Dautb4_mdopamine uptake transporter binding 4 (mouse)Not determined116215600596156153Mouse
27226730Tibmd1_mtibia midshaft diameter 1, 5 week (mouse)1162590826109390826Mouse
1301999Lmr15_mleishmaniasis resistance 15 (mouse)Not determined116331940781830473Mouse
10044004Stzid3_mstreptozotocin induced diabetes susceptibility 3 (mouse)Not determined116331940794063918Mouse
11039502Ltpr6b_mLeishmania tropica response 6b (mouse)116483033698830473Mouse
11039501Ltpr6a_mLeishmania tropica response 6a (mouse)116483033698830473Mouse
11039515Ltpr6_mLeishmania tropica response 6 (mouse)116483033698830473Mouse
1357766Si5lq6_mserum IGFBP-5 level QTL 6 (mouse)Not determined1166733420100733652Mouse
1301546Pcir2_mperiosteal circumference 2 (mouse)Not determined1166733420100733652Mouse
1301833Tbbmd5_mtotal body bone mineral density 5 (mouse)Not determined1166733420100733652Mouse
1300628Lgth6_mbody length 6 (mouse)Not determined1166733420100733652Mouse
4141012Femwf6_mfemur work to failure 6 (mouse)Not determined66733420100733652Mouse
1300784Prdt3_mprion disease incubation time 3 (mouse)Not determined1166733420100733652Mouse
4142316Ity2b_mimmunity to S. typhimurium 2b (mouse)Not determined116707819179813912Mouse
27226783Tibl5_mtibia length 5, 5 week (mouse)1168190826101890826Mouse
1558812Rafar_mretinoic acid induced forelimb autopod reduction (mouse)Not determined1170691198104691366Mouse
1301681Sle13_msystematic lupus erythematosus susceptibility 13 (mouse)Not determined1170691198104691366Mouse
1300651Pcyts3_mplasmacytoma susceptibility 3 (mouse)Not determined1170691198104691366Mouse
4141339Nilac2_mnicotine induced locomotor activity 2 (mouse)Not determined1170691198104691366Mouse
1301404Sbmd4_mspinal bone mineral density 4 (mouse)Not determined1172019649106019734Mouse
1301078Alcp2_malcohol preference locus 2 (mouse)Not determined117220979684731462Mouse
1301310Tmevd5_mTheiler's murine encephalomyelitis virus induced demyelinating disease susceptibility 5 (mouse)Not determined1172726125106726289Mouse
4142348Pstc2_mperiosteal circumference 2 (mouse)Not determined1172818615106818733Mouse
10043866Adip19_madiposity 19 (mouse)Not determined1172818615106818733Mouse
12903994Opfaq3_mopen field activity QTL 3 (mouse)117373754182069425Mouse
11038695Par8_mpulmonary adenoma resistance 8 (mouse)1177063779111063918Mouse
1301414Heal10_mwound healing/regeneration 10 (mouse)Not determined1177437183111437322Mouse
10045616Heal25_mwound healing/regeneration 25 (mouse)Not determined1177437183111437322Mouse
4141365Ltxs3_mlethal factor toxin susceptibility 3 (mouse)Not determined117757387380746358Mouse
1302124Eae7_msusceptibility to experimental allergic encephalomyelitis 7 (mouse)Not determined117757387399377820Mouse
10413882Moe1_mmodifier of epilepsy 1 (mouse)1177770978111771099Mouse

Markers in Region
BE447088  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm381178,839,138 - 78,839,257UniSTSGRCm38
MGSCv371178,652,640 - 78,652,759UniSTSGRCm37
Celera1188,471,498 - 88,471,617UniSTS
Cytogenetic Map11B5UniSTS
Whitehead/MRC_RH11997.81UniSTS


Expression


Sequence


Reference Sequences
RefSeq Acc Id: ENSMUST00000100748
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1178,717,455 - 78,730,101 (+)Ensembl
GRCm38.p6 Ensembl1178,826,629 - 78,839,275 (+)Ensembl
RefSeq Acc Id: ENSMUST00000141321   ⟹   ENSMUSP00000131608
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1178,717,430 - 78,729,082 (+)Ensembl
GRCm38.p6 Ensembl1178,826,604 - 78,838,256 (+)Ensembl
RefSeq Acc Id: ENSMUST00000147875   ⟹   ENSMUSP00000127853
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1178,717,410 - 78,737,696 (+)Ensembl
GRCm38.p6 Ensembl1178,826,584 - 78,846,870 (+)Ensembl
RefSeq Acc Id: NM_001076681   ⟹   NP_001070149
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391178,717,421 - 78,734,725 (+)NCBI
GRCm381178,826,595 - 78,843,899 (+)ENTREZGENE
MGSCv371178,640,097 - 78,657,401 (+)RGD
Celera1188,458,955 - 88,476,259 (+)RGD
cM Map11 ENTREZGENE
Sequence:
Protein Sequences
Protein RefSeqs NP_001070149 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAI30225 (Get FASTA)   NCBI Sequence Viewer  
  BAE25857 (Get FASTA)   NCBI Sequence Viewer  
  EDL15594 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSMUSP00000127853
  ENSMUSP00000127853.2
  ENSMUSP00000131608.2
GenBank Protein Q3UN90 (Get FASTA)   NCBI Sequence Viewer  
Reference Protein Sequences
RefSeq Acc Id: NP_001070149   ⟸   NM_001076681
- UniProtKB: A1L3P7 (UniProtKB/Swiss-Prot),   Q3UN90 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: ENSMUSP00000127853   ⟸   ENSMUST00000147875
RefSeq Acc Id: ENSMUSP00000131608   ⟸   ENSMUST00000141321
Protein Domains
Complex 1 LYR protein

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q3UN90-F1-model_v2 AlphaFold Q3UN90 1-78 view protein structure

Promoters
RGD ID:6820156
Promoter ID:MM_KWN:8736
Type:CpG-Island
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:3T3L1_Day3,   BoneMarrow_0Hour,   BoneMarrow_2Hour,   BoneMarrow_4Hour,   Brain,   Lung
Transcripts:OTTMUST00000000427,   UC007KKB.1
Position:
Mouse AssemblyChrPosition (strand)Source
MGSCv361178,639,821 - 78,640,321 (+)MPROMDB
RGD ID:8675748
Promoter ID:EPDNEW_M15905
Type:multiple initiation site
Name:Lyrm9_1
Description:Mus musculus LYR motif containing 9 , 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
GRCm381178,826,589 - 78,826,649EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene MGI:1913524 AgrOrtholog
Ensembl Genes ENSMUSG00000072640 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Ensembl Transcript ENSMUST00000141321.2 UniProtKB/TrEMBL
  ENSMUST00000147875 ENTREZGENE
  ENSMUST00000147875.9 UniProtKB/Swiss-Prot
InterPro Complex1_LYR UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Complex1_LYR_LYRM9 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report mmu:66274 UniProtKB/Swiss-Prot
MGD MGI:1913524 ENTREZGENE
NCBI Gene 66274 ENTREZGENE
PANTHER LYR MOTIF-CONTAINING PROTEIN 9 UniProtKB/Swiss-Prot
  LYR MOTIF-CONTAINING PROTEIN 9 UniProtKB/Swiss-Prot
  LYR MOTIF-CONTAINING PROTEIN 9 UniProtKB/TrEMBL
  LYR MOTIF-CONTAINING PROTEIN 9 UniProtKB/TrEMBL
Pfam Complex1_LYR UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Lyrm9 PhenoGen
UniProt A1L3P7 ENTREZGENE
  E9PX24_MOUSE UniProtKB/TrEMBL
  LYRM9_MOUSE UniProtKB/Swiss-Prot, ENTREZGENE
UniProt Secondary A1L3P7 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2012-11-27 Lyrm9  LYR motif containing 9  1810012P15Rik  RIKEN cDNA 1810012P15 gene  Symbol and/or name change 5135510 APPROVED