Lmf2 (lipase maturation factor 2) - Rat Genome Database

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Gene: Lmf2 (lipase maturation factor 2) Rattus norvegicus
Analyze
Symbol: Lmf2
Name: lipase maturation factor 2
RGD ID: 1306274
Description: Predicted to be involved in protein maturation. Predicted to be active in endoplasmic reticulum membrane. Orthologous to human LMF2 (lipase maturation factor 2); INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; bisphenol A; coumarin.
Type: protein-coding (Ensembl: pseudogene)
RefSeq Status: PROVISIONAL
Previously known as: LOC315218; RGD1306274; similar to hypothetical protein BC002942; Tmem112b; transmembrane protein 112B
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr87122,297,971 - 122,302,423 (-)NCBIGRCr8
mRatBN7.27120,418,343 - 120,422,825 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl7120,418,345 - 120,422,823 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx7122,169,034 - 122,173,490 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.07124,395,189 - 124,399,644 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.07124,357,860 - 124,362,311 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.07130,322,018 - 130,326,470 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl7130,322,020 - 130,326,470 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.07130,007,319 - 130,011,771 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.47127,646,134 - 127,650,588 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.17127,680,363 - 127,684,818 (-)NCBI
Celera7116,892,158 - 116,895,843 (-)NCBICelera
Cytogenetic Map7q34NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction 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. 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. 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:12477932   PMID:19946888  


Genomics

Comparative Map Data
Lmf2
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr87122,297,971 - 122,302,423 (-)NCBIGRCr8
mRatBN7.27120,418,343 - 120,422,825 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl7120,418,345 - 120,422,823 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx7122,169,034 - 122,173,490 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.07124,395,189 - 124,399,644 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.07124,357,860 - 124,362,311 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.07130,322,018 - 130,326,470 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl7130,322,020 - 130,326,470 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.07130,007,319 - 130,011,771 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.47127,646,134 - 127,650,588 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.17127,680,363 - 127,684,818 (-)NCBI
Celera7116,892,158 - 116,895,843 (-)NCBICelera
Cytogenetic Map7q34NCBI
LMF2
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh382250,502,949 - 50,507,702 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl2250,502,949 - 50,507,702 (-)EnsemblGRCh38hg38GRCh38
GRCh372250,941,378 - 50,946,131 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 362249,288,246 - 49,292,979 (-)NCBINCBI36Build 36hg18NCBI36
Celera2234,817,402 - 34,822,161 (-)NCBICelera
Cytogenetic Map22q13.33NCBI
HuRef2233,832,434 - 33,837,266 (-)NCBIHuRef
CHM1_12250,900,119 - 50,904,701 (-)NCBICHM1_1
T2T-CHM13v2.02251,013,236 - 51,018,273 (-)NCBIT2T-CHM13v2.0
Lmf2
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391589,235,203 - 89,239,860 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1589,235,207 - 89,239,862 (-)EnsemblGRCm39 Ensembl
GRCm381589,351,004 - 89,355,694 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1589,351,004 - 89,355,659 (-)EnsemblGRCm38mm10GRCm38
MGSCv371589,181,435 - 89,186,090 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361589,178,775 - 89,183,251 (-)NCBIMGSCv36mm8
Celera1591,480,143 - 91,484,798 (-)NCBICelera
Cytogenetic Map15E3NCBI
cM Map1544.84NCBI
Lmf2
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495541333,487,917 - 33,492,033 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495541333,487,970 - 33,492,033 (-)NCBIChiLan1.0ChiLan1.0
LMF2
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v22360,423,350 - 60,428,168 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan12263,113,790 - 63,118,967 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v02230,749,448 - 30,754,616 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.12249,859,550 - 49,864,265 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl2249,859,550 - 49,864,237 (-)Ensemblpanpan1.1panPan2
LMF2
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11016,802,110 - 16,806,471 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1016,801,342 - 16,806,020 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1016,779,795 - 16,784,171 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.01017,528,304 - 17,531,440 (+)NCBIROS_Cfam_1.0
UMICH_Zoey_3.11017,252,845 - 17,257,220 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01017,575,862 - 17,580,230 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01017,708,089 - 17,712,466 (+)NCBIUU_Cfam_GSD_1.0
Lmf2
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024404945332,772 - 336,927 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_004936629332,768 - 337,062 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_004936629332,772 - 336,927 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
LMF2
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl5233,401 - 238,266 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.15233,601 - 238,266 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.25110,542,033 - 110,546,699 (-)NCBISscrofa10.2Sscrofa10.2susScr3
LMF2
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11932,973,979 - 32,978,433 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1932,974,420 - 32,978,374 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366604592,362,295 - 92,366,843 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Lmf2
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_004624752269,147 - 273,054 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_004624752269,054 - 273,316 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Lmf2
33 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:75
Count of miRNA genes:68
Interacting mature miRNAs:73
Transcripts:ENSRNOT00000049538
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 (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1300179Kidm5Kidney mass QTL 53.51kidney mass (VT:0002707)left kidney wet weight (CMO:0000083)743747012135012528Rat
1354582Stl11Serum triglyceride level QTL 113.42blood triglyceride amount (VT:0002644)serum triglyceride level (CMO:0000360)7119513385135012528Rat
1300112Bp183Blood pressure QTL 1833.51arterial blood pressure trait (VT:2000000)blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)7111182207135012528Rat
1331728Bp214Blood pressure QTL 2142.825arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)780221299124373579Rat
1331731Bp216Blood pressure QTL 2162.851arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)7102297359133492884Rat
2298475Eau6Experimental allergic uveoretinitis QTL 60.0029uvea integrity trait (VT:0010551)experimental autoimmune uveitis score (CMO:0001504)784257275129257275Rat
71114Niddm14Non-insulin dependent diabetes mellitus QTL 144.5blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)784257275129257275Rat
631687Hcas1Hepatocarcinoma susceptibility QTL 13.90.001liver integrity trait (VT:0010547)liver tumorous lesion volume to total liver volume ratio (CMO:0001082)791412594129807172Rat
1357339Stl14Serum triglyceride level QTL 143.450.0001blood triglyceride amount (VT:0002644)serum triglyceride level (CMO:0000360)7112729683133492707Rat
634331Pia17Pristane induced arthritis QTL 174.7joint integrity trait (VT:0010548)arthritic paw count (CMO:0001460)773829340130221005Rat
1358914Bp266Blood pressure QTL 266arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)783591953134666232Rat
634322Bw12Body weight QTL 120body mass (VT:0001259)body weight (CMO:0000012)783153392128153392Rat
70173Niddm19Non-insulin dependent diabetes mellitus QTL 194.330.00005blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)764002457135012528Rat
1549899Stresp8Stress response QTL 84.370.0008stress-related behavior trait (VT:0010451)defensive burying duration (CMO:0001961)790482196135012528Rat
2317052Aia17Adjuvant induced arthritis QTL 172.13joint integrity trait (VT:0010548)left rear ankle joint diameter (CMO:0002149)781737938126737938Rat
731176Glom5Glomerulus QTL 52.50.0035kidney glomerulus morphology trait (VT:0005325)count of superficial glomeruli not directly contacting the kidney surface (CMO:0001002)796670164135012528Rat
7411607Foco15Food consumption QTL 150.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)775918751120918751Rat
2306821Bp335Blood pressure QTL 3350.001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)7106571501135012528Rat
631663Bw6Body weight QTL 63.4body mass (VT:0001259)body weight (CMO:0000012)7111075573134976056Rat
1558655Swd4Spike wave discharge measurement QTL 43.680.0002brain electrophysiology trait (VT:0010557)brain spike-and-wave discharge severity grade (CMO:0001988)786983365131983365Rat
631201Panci1Pancreas inflammation QTL 100.001pancreas integrity trait (VT:0010560)percentage of study population displaying chronic pancreatitis at a point in time (CMO:0001214)7116677189127103496Rat
1331768Kidm10Kidney mass QTL 104.62096kidney mass (VT:0002707)left kidney wet weight (CMO:0000083)780221299125221299Rat
731174Uae23Urinary albumin excretion QTL 232.40.0042urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)7104603555135012528Rat
1331748Bp215Blood pressure QTL 2154.043arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)7112308254133492884Rat
7411654Foco25Food consumption QTL 259.30.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)775918751120918751Rat
2299163Iddm34Insulin dependent diabetes mellitus QTL 342.71blood glucose amount (VT:0000188)age at onset/diagnosis of type 1 diabetes mellitus (CMO:0001140)791281130135012528Rat
1582240Sffal1Serum free fatty acids level QTL 13.40.0021blood free fatty acid amount (VT:0001553)serum free fatty acids level (CMO:0000547)7116677010124049952Rat
1358891Bp265Blood pressure QTL 2652.21arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)783591953134666232Rat

Markers in Region
RH133077  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.27120,418,599 - 120,418,798 (+)MAPPERmRatBN7.2
Rnor_6.07130,322,275 - 130,322,473NCBIRnor6.0
Rnor_5.07130,007,576 - 130,007,774UniSTSRnor5.0
RGSC_v3.47127,646,391 - 127,646,589UniSTSRGSC3.4
Celera7116,892,413 - 116,892,611UniSTS
RH 3.4 Map7958.3UniSTS
Cytogenetic Map7q34UniSTS


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: ENSRNOT00000049538   ⟹   ENSRNOP00000051363
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl7120,418,345 - 120,422,823 (-)Ensembl
Rnor_6.0 Ensembl7130,322,020 - 130,326,470 (-)Ensembl
RefSeq Acc Id: NM_001079939   ⟹   NP_001073408
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr87122,297,971 - 122,302,423 (-)NCBI
mRatBN7.27120,418,343 - 120,422,795 (-)NCBI
Rnor_6.07130,322,018 - 130,326,470 (-)NCBI
Rnor_5.07130,007,319 - 130,011,771 (-)NCBI
RGSC_v3.47127,646,134 - 127,650,588 (-)RGD
Celera7116,892,158 - 116,895,843 (-)RGD
Sequence:
Protein Sequences
Protein RefSeqs NP_001073408 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein A1L1J9 (Get FASTA)   NCBI Sequence Viewer  
  AAH88333 (Get FASTA)   NCBI Sequence Viewer  
  AAI29103 (Get FASTA)   NCBI Sequence Viewer  
  EDL76559 (Get FASTA)   NCBI Sequence Viewer  
RefSeq Acc Id: NP_001073408   ⟸   NM_001079939
- UniProtKB: Q5I0G9 (UniProtKB/Swiss-Prot),   A1L1J9 (UniProtKB/Swiss-Prot)
- Sequence:
Ensembl Acc Id: ENSRNOP00000051363   ⟸   ENSRNOT00000049538

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-A1L1J9-F1-model_v2 AlphaFold A1L1J9 1-702 view protein structure

Transcriptome

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

Promoters
RGD ID:13695584
Promoter ID:EPDNEW_R6109
Type:multiple initiation site
Name:Lmf2_1
Description:lipase maturation factor 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_6.07130,326,338 - 130,326,398EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1306274 AgrOrtholog
BioCyc Gene G2FUF-32441 BioCyc
Ensembl Genes ENSRNOG00000030633 Ensembl
IMAGE_CLONE IMAGE:7099869 IMAGE-MGC_LOAD
  IMAGE:7365896 IMAGE-MGC_LOAD
InterPro LMF UniProtKB/Swiss-Prot
KEGG Report rno:315218 UniProtKB/Swiss-Prot
MGC_CLONE MGC:109593 IMAGE-MGC_LOAD
  MGC:156704 IMAGE-MGC_LOAD
NCBI Gene 315218 ENTREZGENE
PANTHER LIPASE MATURATION FACTOR 2 UniProtKB/Swiss-Prot
  PTHR14463 UniProtKB/Swiss-Prot
Pfam LMF1 UniProtKB/Swiss-Prot
PhenoGen Lmf2 PhenoGen
RatGTEx ENSRNOG00000030633 RatGTEx
UniProt A1L1J9 ENTREZGENE, UniProtKB/Swiss-Prot
  Q5I0G9 ENTREZGENE
UniProt Secondary Q5I0G9 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-05-02 Lmf2  lipase maturation factor 2  Tmem112b  transmembrane protein 112B  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-03-07 Tmem112b  transmembrane protein 112B  RGD1306274  similar to hypothetical protein BC002942  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2005-12-06 RGD1306274  similar to hypothetical protein BC002942  RGD1306274_predicted  similar to hypothetical protein BC002942 (predicted)  Symbol and Name updated 1559027 APPROVED
2005-01-20 RGD1306274_predicted  similar to hypothetical protein BC002942 (predicted)  LOC315218_predicted    Symbol and Name status set to approved 1331353 APPROVED
2005-01-12 LOC315218_predicted  similar to hypothetical protein BC002942 (predicted)      Symbol and Name status set to provisional 70820 PROVISIONAL