Leprotl1 (leptin receptor overlapping transcript-like 1) - Rat Genome Database

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Gene: Leprotl1 (leptin receptor overlapping transcript-like 1) Rattus norvegicus
Analyze
Symbol: Leprotl1
Name: leptin receptor overlapping transcript-like 1
RGD ID: 1307168
Description: Predicted to enable identical protein binding activity. Predicted to be involved in late endosome to vacuole transport via multivesicular body sorting pathway and negative regulation of growth hormone receptor signaling pathway. Predicted to be located in membrane. Predicted to be active in endosome. Orthologous to human LEPROTL1 (leptin receptor overlapping transcript like 1); INTERACTS WITH 2,4-dinitrotoluene; amphetamine; bisphenol A.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: endospanin-2; LOC361160
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Black Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81664,744,148 - 64,756,776 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1664,743,717 - 64,756,776 (+)EnsemblGRCr8
mRatBN7.21658,040,934 - 58,053,602 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1658,040,960 - 58,053,593 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx1663,381,367 - 63,393,993 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01666,795,026 - 66,807,652 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01662,015,633 - 62,028,259 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.01661,758,941 - 61,769,655 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1661,758,917 - 61,771,569 (+)Ensemblrn6Rnor6.0
Rnor_5.01661,424,726 - 61,435,440 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.41661,768,315 - 61,779,168 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1656,079,159 - 56,089,745 (+)NCBICelera
RGSC_v3.11661,768,389 - 61,779,243 (+)NCBI
Cytogenetic Map16q12.2NCBI
JBrowse:




Disease Annotations     Click to see Annotation Detail View

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component
endosome  (IBA)
membrane  (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. Novel interaction of Rab13 and Rab8 with endospanins. Hirvonen MJ, etal., FEBS Open Bio. 2013 Jan 22;3:83-8. doi: 10.1016/j.fob.2013.01.004. Print 2013.
3. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
4. GOA pipeline RGD automated data pipeline
5. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
6. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, etal., Proc Natl Acad Sci U S A. 2002 Dec 24;99(26):16899-903. Epub 2002 Dec 11.

Genomics

Comparative Map Data
Leprotl1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81664,744,148 - 64,756,776 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1664,743,717 - 64,756,776 (+)EnsemblGRCr8
mRatBN7.21658,040,934 - 58,053,602 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1658,040,960 - 58,053,593 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx1663,381,367 - 63,393,993 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01666,795,026 - 66,807,652 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01662,015,633 - 62,028,259 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.01661,758,941 - 61,769,655 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1661,758,917 - 61,771,569 (+)Ensemblrn6Rnor6.0
Rnor_5.01661,424,726 - 61,435,440 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.41661,768,315 - 61,779,168 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1656,079,159 - 56,089,745 (+)NCBICelera
RGSC_v3.11661,768,389 - 61,779,243 (+)NCBI
Cytogenetic Map16q12.2NCBI
LEPROTL1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38830,095,408 - 30,138,348 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl830,095,408 - 30,177,208 (+)Ensemblhg38GRCh38
GRCh37829,952,924 - 29,995,864 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36830,072,487 - 30,085,122 (+)NCBIBuild 36Build 36hg18NCBI36
Build 34830,072,486 - 30,085,122NCBI
Celera828,912,217 - 28,954,626 (+)NCBICelera
Cytogenetic Map8p12NCBI
HuRef828,497,678 - 28,540,006 (+)NCBIHuRef
CHM1_1830,155,269 - 30,197,555 (+)NCBICHM1_1
T2T-CHM13v2.0830,374,316 - 30,417,266 (+)NCBIT2T-CHM13v2.0
Leprotl1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39834,602,726 - 34,613,893 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl834,602,726 - 34,614,187 (-)EnsemblGRCm39 EnsemblGRCm39
GRCm38834,135,572 - 34,146,739 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl834,135,572 - 34,147,033 (-)Ensemblmm10GRCm38
MGSCv37835,198,626 - 35,209,793 (-)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv36835,604,089 - 35,615,256 (-)NCBIMGSCv36mm8
Celera836,754,593 - 36,765,783 (-)NCBICelera
Cytogenetic Map8A4NCBI
cM Map820.9NCBI
Leprotl1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554636,566,994 - 6,588,206 (+)Ensembl
ChiLan1.0NW_0049554636,580,294 - 6,585,738 (+)NCBIChiLan1.0ChiLan1.0
LEPROTL1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2748,655,724 - 48,669,522 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1824,371,212 - 24,384,938 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0829,397,120 - 29,409,825 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1826,591,831 - 26,599,950 (+)NCBIPanPan1.1PanPan1.1panPan2
PanPan1.1 Ensembl826,587,665 - 26,629,491 (+)EnsemblpanPan2panpan1.1
LEPROTL1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11634,176,810 - 34,195,552 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1634,154,253 - 34,189,127 (-)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha1634,640,226 - 34,651,630 (-)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.01636,206,737 - 36,225,264 (-)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1636,183,994 - 36,219,338 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11634,305,946 - 34,317,144 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01634,874,803 - 34,885,993 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01634,995,239 - 35,006,449 (-)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
Leprotl1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494345,047,582 - 45,058,596 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493657383,653 - 88,929 (-)EnsemblSpeTri2.0 Ensembl
SpeTri2.0NW_00493657383,835 - 94,825 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
LEPROTL1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1554,916,038 - 54,929,762 (-)EnsemblsusScr11Sscrofa11.1
Sscrofa11.11554,916,037 - 54,929,858 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21562,265,983 - 62,276,131 (-)NCBISscrofa10.2Sscrofa10.2susScr3
LEPROTL1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1828,195,992 - 28,208,776 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl828,196,111 - 28,209,157 (+)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
Vero_WHO_p1.0NW_02366605213,865,207 - 13,909,813 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Leprotl1
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v11352,881,338 - 52,892,154 (+)NCBIRrattus_CSIRO_v1

Variants

.
Variants in Leprotl1
103 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:56
Count of miRNA genes:53
Interacting mature miRNAs:56
Transcripts:ENSRNOT00000067231
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
2300163Bmd64Bone mineral density QTL 645.30.0001lumbar vertebra mineral mass (VT:0010511)volumetric bone mineral density (CMO:0001553)164445512389455123Rat
70215Niddm29Non-insulin dependent diabetes mellitus QTL 293.54blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)163692878281928782Rat
1578768Stresp22Stress response QTL 222.8thymus mass (VT:0004954)thymus wet weight (CMO:0000855)164199206486992064Rat
737826Alc11Alcohol consumption QTL 113.2consumption behavior trait (VT:0002069)ethanol drink intake rate (CMO:0001407)16423421266955197Rat
2302057Pia29Pristane induced arthritis QTL 293.60.001blood autoantibody amount (VT:0003725)serum immunoglobulin M-type rheumatoid factor level relative to an arbitrary reference serum (CMO:0002111)162846870173468701Rat
7205510Activ5Activity QTL 53.780.00028locomotor behavior trait (VT:0001392)number of entries into a discrete space in an experimental apparatus (CMO:0000960)164909919691442908Rat
631525Pia14Pristane induced arthritis QTL 144.4joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)166241446475736480Rat
1357403Slep4Serum leptin concentration QTL 43.91blood leptin amount (VT:0005667)serum leptin level (CMO:0000780)163236104377361043Rat
8694453Bw172Body weight QTL 1728.330.001retroperitoneal fat pad mass (VT:0010430)retroperitoneal fat pad weight to body weight ratio (CMO:0000635)163105803976058039Rat
7411648Foco22Food consumption QTL 22150.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)165942871491442908Rat
1298529Arunc1Aerobic running capacity QTL 14exercise endurance trait (VT:0002332)longest distance run on treadmill (CMO:0001406)163439829479398294Rat
2312663Slep9Serum leptin concentration QTL 90.001blood leptin amount (VT:0005667)serum leptin level (CMO:0000780)1683908666195506Rat
2312660Bw95Body weight QTL 950.05inguinal fat pad mass (VT:0010424)inguinal fat pad weight to body weight ratio (CMO:0001253)1683908666195506Rat
6903294Stl30Serum triglyceride level QTL 302.60.0013blood triglyceride amount (VT:0002644)plasma triglyceride level (CMO:0000548)163188527176885271Rat
2293690Bss45Bone structure and strength QTL 455.130.0001lumbar vertebra morphology trait (VT:0010494)lumbar vertebra cortical cross-sectional area (CMO:0001690)164445512389455123Rat
8694364Abfw7Abdominal fat weight QTL 712.220.001visceral adipose mass (VT:0010063)abdominal fat pad weight to body weight ratio (CMO:0000095)165942871491442908Rat
2312666Insul16Insulin level QTL 160.01blood insulin amount (VT:0001560)serum insulin level (CMO:0000358)1683908666195506Rat
8694429Bw164Body weight QTL 16450.001body lean mass (VT:0010483)lean tissue morphological measurement (CMO:0002184)165942871491442908Rat
70205Gcr3Gastric cancer resistance QTL 32.3stomach morphology trait (VT:0000470)stomach tumor diameter (CMO:0001889)161773081872536785Rat
2312669Stl23Serum triglyceride level QTL 230.01blood triglyceride amount (VT:0002644)serum triglyceride level (CMO:0000360)1683908666195506Rat

Markers in Region
RH140663  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21658,050,226 - 58,051,431 (+)MAPPERmRatBN7.2
Rnor_6.01661,768,186 - 61,769,390NCBIRnor6.0
Rnor_5.01661,433,971 - 61,435,175UniSTSRnor5.0
RGSC_v3.41661,777,560 - 61,778,903UniSTSRGSC3.4
Celera1656,088,276 - 56,089,480UniSTS
RH 3.4 Map16543.01UniSTS
Cytogenetic Map16q12.2UniSTS


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: ENSRNOT00000067231   ⟹   ENSRNOP00000059797
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1661,765,344 - 61,769,456 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000084858   ⟹   ENSRNOP00000068610
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1664,743,859 - 64,756,776 (+)Ensembl
mRatBN7.2 Ensembl1658,040,960 - 58,053,593 (+)Ensembl
Rnor_6.0 Ensembl1661,758,917 - 61,771,569 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000102839   ⟹   ENSRNOP00000096357
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1664,744,173 - 64,756,775 (+)Ensembl
mRatBN7.2 Ensembl1658,046,591 - 58,053,593 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000114626   ⟹   ENSRNOP00000091683
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1664,750,206 - 64,756,776 (+)Ensembl
mRatBN7.2 Ensembl1658,047,032 - 58,053,593 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000123298   ⟹   ENSRNOP00000112524
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1664,743,717 - 64,756,769 (+)Ensembl
RefSeq Acc Id: NM_001013188   ⟹   NP_001013206
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81664,744,148 - 64,756,776 (+)NCBI
mRatBN7.21658,040,974 - 58,053,602 (+)NCBI
Rnor_6.01661,758,941 - 61,769,655 (+)NCBI
Rnor_5.01661,424,726 - 61,435,440 (+)NCBI
RGSC_v3.41661,768,315 - 61,779,168 (+)RGD
Celera1656,079,159 - 56,089,745 (+)RGD
Sequence:
Protein Sequences
Protein RefSeqs NP_001013206 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAH58504 (Get FASTA)   NCBI Sequence Viewer  
  CBX85014 (Get FASTA)   NCBI Sequence Viewer  
  EDM09176 (Get FASTA)   NCBI Sequence Viewer  
  EDM09177 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000068610.1
  ENSRNOP00000112524
GenBank Protein Q6PDU4 (Get FASTA)   NCBI Sequence Viewer  
RefSeq Acc Id: NP_001013206   ⟸   NM_001013188
- UniProtKB: Q6PDU4 (UniProtKB/Swiss-Prot),   A0A8I6AQM0 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000059797   ⟸   ENSRNOT00000067231
Ensembl Acc Id: ENSRNOP00000068610   ⟸   ENSRNOT00000084858
Ensembl Acc Id: ENSRNOP00000091683   ⟸   ENSRNOT00000114626
Ensembl Acc Id: ENSRNOP00000096357   ⟸   ENSRNOT00000102839
Ensembl Acc Id: ENSRNOP00000112524   ⟸   ENSRNOT00000123298

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q6PDU4-F1-model_v2 AlphaFold Q6PDU4 1-131 view protein structure

Transcriptome

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

Promoters
RGD ID:13700137
Promoter ID:EPDNEW_R10661
Type:initiation region
Name:Leprotl1_1
Description:leptin receptor overlapping transcript-like 1
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_6.01661,758,920 - 61,758,980EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1307168 AgrOrtholog
BioCyc Gene G2FUF-11140 BioCyc
Ensembl Genes ENSRNOG00000012601 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000084858.2 UniProtKB/Swiss-Prot
  ENSRNOT00000123298 ENTREZGENE
IMAGE_CLONE IMAGE:6887991 IMAGE-MGC_LOAD
InterPro Vps55/LEPROT UniProtKB/Swiss-Prot
KEGG Report rno:361160 UniProtKB/Swiss-Prot
MGC_CLONE MGC:72989 IMAGE-MGC_LOAD
NCBI Gene 361160 ENTREZGENE
PANTHER LEPTIN RECEPTOR OVERLAPPING TRANSCRIPT-LIKE 1 UniProtKB/Swiss-Prot
  PTHR12050 UniProtKB/Swiss-Prot
Pfam Vps55 UniProtKB/Swiss-Prot
PhenoGen Leprotl1 PhenoGen
RatGTEx ENSRNOG00000012601 RatGTEx
UniProt A0A8I6AFY7_RAT UniProtKB/TrEMBL
  A0A8I6AQM0 ENTREZGENE, UniProtKB/TrEMBL
  A6IVP6_RAT UniProtKB/TrEMBL
  LERL1_RAT UniProtKB/Swiss-Prot, ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2005-12-06 Leprotl1  leptin receptor overlapping transcript-like 1  Leprotl1_predicted  leptin receptor overlapping transcript-like 1 (predicted)  Symbol and Name updated 1559027 APPROVED
2005-01-12 Leprotl1_predicted  leptin receptor overlapping transcript-like 1 (predicted)      Symbol and Name status set to approved 70820 APPROVED