Lyrm2 (LYR motif containing 2) - Rat Genome Database

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Advanced Search (OLGA)
Gene: Lyrm2 (LYR motif containing 2) Rattus norvegicus
Analyze
Symbol: Lyrm2
Name: LYR motif containing 2
RGD ID: 1597334
Description: Predicted to be involved in mitochondrial respiratory chain complex I assembly. Predicted to be active in mitochondrion. Orthologous to human LYRM2 (LYR motif containing 2); INTERACTS WITH 2,2',5,5'-tetrachlorobiphenyl; 2,3,7,8-tetrachlorodibenzodioxine; aconitine.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: hypothetical protein LOC690354; LOC690354; LYR motif-containing protein 2
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Black Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8551,994,540 - 51,996,818 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl551,994,543 - 51,997,979 (+)EnsemblGRCr8
mRatBN7.2547,198,192 - 47,200,470 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl547,198,185 - 47,201,611 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx549,340,036 - 49,342,314 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0550,939,194 - 50,941,472 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0550,884,663 - 50,886,941 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0548,047,913 - 48,050,191 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl548,047,913 - 48,050,187 (+)Ensemblrn6Rnor6.0
Rnor_5.0552,635,558 - 52,637,836 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.4549,094,373 - 49,096,651 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera545,957,501 - 45,959,779 (+)NCBICelera
Cytogenetic Map5q21NCBI
JBrowse:




Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component
mitochondrion  (IBA,IEA)

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. 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.
2. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:12477932   PMID:18614015   PMID:34800366  


Genomics

Comparative Map Data
Lyrm2
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8551,994,540 - 51,996,818 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl551,994,543 - 51,997,979 (+)EnsemblGRCr8
mRatBN7.2547,198,192 - 47,200,470 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl547,198,185 - 47,201,611 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx549,340,036 - 49,342,314 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0550,939,194 - 50,941,472 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0550,884,663 - 50,886,941 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0548,047,913 - 48,050,191 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl548,047,913 - 48,050,187 (+)Ensemblrn6Rnor6.0
Rnor_5.0552,635,558 - 52,637,836 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.4549,094,373 - 49,096,651 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera545,957,501 - 45,959,779 (+)NCBICelera
Cytogenetic Map5q21NCBI
LYRM2
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38689,632,224 - 89,638,747 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl689,568,144 - 89,638,755 (-)Ensemblhg38GRCh38
GRCh37690,341,943 - 90,348,466 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36690,398,664 - 90,405,195 (-)NCBIBuild 36Build 36hg18NCBI36
Celera690,760,915 - 90,767,451 (-)NCBICelera
Cytogenetic Map6q15NCBI
HuRef687,558,887 - 87,565,423 (-)NCBIHuRef
CHM1_1690,439,537 - 90,446,073 (-)NCBICHM1_1
T2T-CHM13v2.0690,841,594 - 90,848,122 (-)NCBIT2T-CHM13v2.0
Lyrm2
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39432,800,259 - 32,802,268 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl432,800,253 - 32,801,559 (+)EnsemblGRCm39 EnsemblGRCm39
GRCm38432,800,259 - 32,802,268 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl432,800,253 - 32,801,559 (+)Ensemblmm10GRCm38
MGSCv37432,887,234 - 32,889,243 (+)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv36433,128,878 - 33,130,863 (+)NCBIMGSCv36mm8
Celera432,539,655 - 32,541,664 (+)NCBICelera
Cytogenetic Map4A5NCBI
cM Map414.42NCBI
Lyrm2
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495541116,361,413 - 16,362,878 (-)Ensembl
ChiLan1.0NW_00495541116,361,061 - 16,362,913 (-)NCBIChiLan1.0ChiLan1.0
LYRM2
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v25109,712,762 - 109,719,905 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan16107,618,004 - 107,622,669 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0687,508,920 - 87,514,494 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1690,749,675 - 90,787,842 (-)NCBIPanPan1.1PanPan1.1panPan2
PanPan1.1 Ensembl690,769,748 - 90,787,842 (-)EnsemblpanPan2panpan1.1
LYRM2
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11248,846,168 - 48,850,095 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1248,847,859 - 48,850,011 (-)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha1248,653,797 - 48,656,735 (-)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.01249,655,971 - 49,658,824 (-)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1249,656,838 - 49,658,732 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11248,971,169 - 48,974,092 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01248,872,326 - 48,875,264 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01249,064,717 - 49,067,655 (-)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
Lyrm2
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494683,863,196 - 83,864,925 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365102,605,918 - 2,610,958 (+)EnsemblSpeTri2.0 Ensembl
SpeTri2.0NW_0049365102,605,964 - 2,607,674 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
LYRM2
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl157,651,684 - 57,654,886 (-)EnsemblsusScr11Sscrofa11.1
Sscrofa11.1157,651,682 - 57,654,895 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2164,551,585 - 64,554,795 (-)NCBISscrofa10.2Sscrofa10.2susScr3
LYRM2
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11314,396,532 - 14,398,806 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1314,397,100 - 14,398,558 (-)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
Vero_WHO_p1.0NW_023666040190,711,744 - 190,715,743 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Lyrm2
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046247994,527,628 - 4,530,434 (+)NCBIHetGla 1.0HetGla 1.0hetGla2
Lyrm2
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v11110,232,543 - 110,234,853 (-)NCBIRrattus_CSIRO_v1

Variants

.
Variants in Lyrm2
15 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:147
Count of miRNA genes:121
Interacting mature miRNAs:134
Transcripts:ENSRNOT00000065926
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 (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1298067Scl15Serum cholesterol level QTL 154.80.001blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)53801167083011670Rat
1578776Stresp18Stress response QTL 182.9thymus mass (VT:0004954)thymus wet weight (CMO:0000855)53275164977751649Rat
1549845Scl44Serum cholesterol level QTL 446blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)544924861153890773Rat
6907115Mcs29Mammary carcinoma susceptibility QTL 29mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)53800433183004331Rat
70212Niddm25Non-insulin dependent diabetes mellitus QTL 253.54blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)538207390136631402Rat
1358353Srcrtb2Stress Responsive Cort Basal QTL 23.480.003blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)52367149379046465Rat
1300117Hrtrt8Heart rate QTL 83.49heart pumping trait (VT:2000009)heart rate (CMO:0000002)5862723052665523Rat
634305Mamtr1Mammary tumor resistance QTL 10.0001mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)51757663362576633Rat
1331801Rf33Renal function QTL 334.149kidney blood vessel physiology trait (VT:0100012)absolute change in renal vascular resistance (CMO:0001900)548523123134369373Rat
1578774Tcas8Tongue tumor susceptibility QTL 83.47tongue integrity trait (VT:0010553)number of squamous cell tumors of the tongue with diameter greater than 3 mm (CMO:0001950)51570745160707451Rat
1598807Glom12Glomerulus QTL 122.7kidney glomerulus morphology trait (VT:0005325)index of glomerular damage (CMO:0001135)53801167083011670Rat
1302786Kidm8Kidney mass QTL 828.15kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)53801167083011670Rat
1331782Rf36Renal function QTL 363.296kidney blood vessel physiology trait (VT:0100012)absolute change in renal blood flow rate (CMO:0001168)539019942102105896Rat
6903292Stl28Serum triglyceride level QTL 282.60.0073blood triglyceride amount (VT:0002644)plasma triglyceride level (CMO:0000548)53331167378311673Rat
1578766Tcas11Tongue tumor susceptibility QTL 114.12tongue integrity trait (VT:0010553)number of squamous cell tumors of the tongue with diameter greater than 3 mm (CMO:0001950)551657967166600247Rat
1578767Stresp17Stress response QTL 174.30.01blood aldosterone amount (VT:0005346)plasma aldosterone level (CMO:0000551)53275164977751649Rat
1641922Alcrsp8Alcohol response QTL 8alcohol metabolism trait (VT:0015089)blood ethanol level (CMO:0000535)51748608062486080Rat
2313085Bss59Bone structure and strength QTL 592.90.0001long bone metaphysis morphology trait (VT:0000133)tibia midshaft total cross-sectional area (CMO:0001715)5862723053627230Rat
1641912Alcrsp18Alcohol response QTL 18response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)53998594884985948Rat
1576314Eutr1Estrogen induced uterine response QTL 1uterus integrity trait (VT:0010575)pyometritis severity score (CMO:0002009)5692228281330203Rat
6903306Scl35Serum cholesterol QTL 352.60.0073blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)53331167378311673Rat
1576317Eutr2Estrogen induced uterine response QTL 20.01uterus integrity trait (VT:0010575)pyometritis severity score (CMO:0002009)53952692484526924Rat
7394712Emca13Estrogen-induced mammary cancer QTL 13mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)51460607859606078Rat
1331773Scl26Serum cholesterol level QTL 263.065blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)54852312391770353Rat
1331771Rf35Renal function QTL 354.36965kidney blood vessel physiology trait (VT:0100012)absolute change in renal blood flow rate (CMO:0001168)51001906491770353Rat
2290448Scl54Serum cholesterol level QTL 542.93blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)536460764136631402Rat
8662454Vetf3Vascular elastic tissue fragility QTL 327.4artery integrity trait (VT:0010639)number of ruptures of the internal elastic lamina of the abdominal aorta and iliac arteries (CMO:0002562)5706553574335773Rat
1641903Alcrsp3Alcohol response QTL 3response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)51748608062486080Rat
1331756Rf34Renal function QTL 344.16275kidney blood vessel physiology trait (VT:0100012)absolute change in renal blood flow rate (CMO:0001168)51001906487027358Rat
8552954Pigfal14Plasma insulin-like growth factor 1 level QTL 149blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)52602321171023211Rat
2303577Gluco47Glucose level QTL 473blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)51652001961520019Rat
1600358Mamtr5Mammary tumor resistance QTL 5mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)52367149368671493Rat


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
musculoskeletal system
nervous system
renal system
reproductive system
respiratory system
sensory system
visual system
16 12 67 165 91 90 59 92 59 6 356 192 11 144 81 92 31 17 17

Sequence


Ensembl Acc Id: ENSRNOT00000065926   ⟹   ENSRNOP00000061849
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl551,994,543 - 51,997,979 (+)Ensembl
mRatBN7.2 Ensembl547,198,185 - 47,201,611 (+)Ensembl
Rnor_6.0 Ensembl548,047,913 - 48,050,187 (+)Ensembl
RefSeq Acc Id: NM_001126096   ⟹   NP_001119568
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8551,994,540 - 51,996,818 (+)NCBI
mRatBN7.2547,198,192 - 47,200,470 (+)NCBI
Rnor_6.0548,047,913 - 48,050,191 (+)NCBI
Rnor_5.0552,635,558 - 52,637,836 (+)NCBI
RGSC_v3.4549,094,373 - 49,096,651 (+)RGD
Celera545,957,501 - 45,959,779 (+)RGD
Sequence:
Protein Sequences
Protein RefSeqs NP_001119568 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAI66578 (Get FASTA)   NCBI Sequence Viewer  
  B2GV91 (Get FASTA)   NCBI Sequence Viewer  
  EDL98567 (Get FASTA)   NCBI Sequence Viewer  
  EDL98568 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000061849
  ENSRNOP00000061849.1
RefSeq Acc Id: NP_001119568   ⟸   NM_001126096
- UniProtKB: B2GV91 (UniProtKB/Swiss-Prot)
- Sequence:
Ensembl Acc Id: ENSRNOP00000061849   ⟸   ENSRNOT00000065926

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-B2GV91-F1-model_v2 AlphaFold B2GV91 1-88 view protein structure

Transcriptome

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

Promoters
RGD ID:13693610
Promoter ID:EPDNEW_R4135
Type:multiple initiation site
Name:Lyrm2_1
Description:LYR motif containing 2
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_6.0548,047,920 - 48,047,980EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1597334 AgrOrtholog
BioCyc Gene G2FUF-41714 BioCyc
Ensembl Genes ENSRNOG00000043105 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000065926 ENTREZGENE
  ENSRNOT00000065926.4 UniProtKB/Swiss-Prot
IMAGE_CLONE IMAGE:7379886 IMAGE-MGC_LOAD
InterPro Complex1_LYR UniProtKB/Swiss-Prot
  Complex1_LYR_LYRM2 UniProtKB/Swiss-Prot
KEGG Report rno:690354 UniProtKB/Swiss-Prot
MGC_CLONE MGC:188277 IMAGE-MGC_LOAD
NCBI Gene 690354 ENTREZGENE
PANTHER LYR MOTIF-CONTAINING PROTEIN 2 UniProtKB/Swiss-Prot
  LYR MOTIF-CONTAINING PROTEIN 2 UniProtKB/Swiss-Prot
Pfam Complex1_LYR UniProtKB/Swiss-Prot
PhenoGen Lyrm2 PhenoGen
RatGTEx ENSRNOG00000043105 RatGTEx
UniProt B2GV91 ENTREZGENE, UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-03-06 Lyrm2  LYR motif containing 2  LOC690354  hypothetical protein LOC690354  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-01-09 LOC690354  hypothetical protein LOC690354  LOC682893  hypothetical protein LOC682893  Data merged from RGD:1593956 1643240 APPROVED
2006-11-20 LOC690354  hypothetical protein LOC690354      Symbol and Name status set to provisional 70820 PROVISIONAL
2006-11-20 LOC682893  hypothetical protein LOC682893      Symbol and Name status set to provisional 70820 PROVISIONAL