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
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81664,744,148 - 64,756,776 (+)NCBIGRCr8
mRatBN7.21658,040,934 - 58,053,602 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1658,040,960 - 58,053,593 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1663,381,367 - 63,393,993 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01666,795,026 - 66,807,652 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01662,015,633 - 62,028,259 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01661,758,941 - 61,769,655 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1661,758,917 - 61,771,569 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01661,424,726 - 61,435,440 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41661,768,315 - 61,779,168 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11661,768,389 - 61,779,243 (+)NCBI
Celera1656,079,159 - 56,089,745 (+)NCBICelera
Cytogenetic Map16q12.2NCBI
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
endosome  (IBA,IEA)
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 (+)NCBIGRCr8
mRatBN7.21658,040,934 - 58,053,602 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1658,040,960 - 58,053,593 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1663,381,367 - 63,393,993 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01666,795,026 - 66,807,652 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01662,015,633 - 62,028,259 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01661,758,941 - 61,769,655 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1661,758,917 - 61,771,569 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01661,424,726 - 61,435,440 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41661,768,315 - 61,779,168 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11661,768,389 - 61,779,243 (+)NCBI
Celera1656,079,159 - 56,089,745 (+)NCBICelera
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 (+)EnsemblGRCh38hg38GRCh38
GRCh37829,952,924 - 29,995,864 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36830,072,487 - 30,085,122 (+)NCBINCBI36Build 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 Ensembl
GRCm38834,135,572 - 34,146,739 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl834,135,572 - 34,147,033 (-)EnsemblGRCm38mm10GRCm38
MGSCv37835,198,626 - 35,209,793 (-)NCBIGRCm37MGSCv37mm9NCBIm37
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 (+)EnsemblChiLan1.0
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 (+)Ensemblpanpan1.1panPan2
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 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1634,640,226 - 34,651,630 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.01636,206,737 - 36,225,264 (-)NCBIROS_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_1.0
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 (-)EnsemblSpeTri2.0SpeTri2.0 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 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
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 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366605213,865,207 - 13,909,813 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0

Variants

.
Variants in Leprotl1
73 total Variants
miRNA Target Status

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 (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1600378Arunc4Aerobic running capacity QTL 40.03exercise endurance trait (VT:0002332)maximum distance run on treadmill (CMO:0001406)1638024580345693Rat
2312660Bw95Body weight QTL 950.05inguinal fat pad mass (VT:0010424)inguinal fat pad weight to body weight ratio (CMO:0001253)1683223659492508Rat
2312663Slep9Serum leptin concentration QTL 90.001blood leptin amount (VT:0005667)serum leptin level (CMO:0000780)1683223659492508Rat
2312666Insul16Insulin level QTL 160.01blood insulin amount (VT:0001560)serum insulin level (CMO:0000358)1683223659492508Rat
2312669Stl23Serum triglyceride level QTL 230.01blood triglyceride amount (VT:0002644)serum triglyceride level (CMO:0000360)1683223659492508Rat
737826Alc11Alcohol consumption QTL 113.2consumption behavior trait (VT:0002069)ethanol drink intake rate (CMO:0001407)16422760960252231Rat
70205Gcr3Gastric cancer resistance QTL 32.3stomach morphology trait (VT:0000470)stomach tumor depth of invasion (CMO:0001888)161769679182635055Rat
70205Gcr3Gastric cancer resistance QTL 32.3stomach morphology trait (VT:0000470)stomach tumor depth of invasion (CMO:0001888)161769679182635055Rat
70205Gcr3Gastric cancer resistance QTL 32.3stomach morphology trait (VT:0000470)stomach tumor diameter (CMO:0001889)161769679182635055Rat
70205Gcr3Gastric cancer resistance QTL 32.3stomach morphology trait (VT:0000470)stomach tumor diameter (CMO:0001889)161769679182635055Rat
70215Niddm29Non-insulin dependent diabetes mellitus QTL 293.54blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)161900443575226532Rat
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)162173597566735975Rat
8694453Bw172Body weight QTL 1728.330.001retroperitoneal fat pad mass (VT:0010430)retroperitoneal fat pad weight to body weight ratio (CMO:0000635)162432551369325513Rat
6903294Stl30Serum triglyceride level QTL 302.60.0013blood triglyceride amount (VT:0002644)plasma triglyceride level (CMO:0000548)162515279370152793Rat
1298529Arunc1Aerobic running capacity QTL 14exercise endurance trait (VT:0002332)maximum distance run on treadmill (CMO:0001406)163195152060148445Rat
1578768Stresp22Stress response QTL 222.8thymus mass (VT:0004954)thymus wet weight (CMO:0000855)163528887080288870Rat
2293690Bss45Bone structure and strength QTL 455.130.0001lumbar vertebra morphology trait (VT:0010494)lumbar vertebra cortical cross-sectional area (CMO:0001690)163775215682752156Rat
2300163Bmd64Bone mineral density QTL 645.30.0001lumbar vertebra mineral mass (VT:0010511)volumetric bone mineral density (CMO:0001553)163775215682752156Rat
7205510Activ5Activity QTL 53.780.00028locomotor behavior trait (VT:0001392)number of entries into a discrete space in an experimental apparatus (CMO:0000960)164239634584729064Rat
8694429Bw164Body weight QTL 16450.001body lean mass (VT:0010483)lean tissue morphological measurement (CMO:0002184)165272646484729064Rat
8694364Abfw7Abdominal fat weight QTL 712.220.001visceral adipose mass (VT:0010063)abdominal fat pad weight to body weight ratio (CMO:0000095)165272646484729064Rat
7411648Foco22Food consumption QTL 22150.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)165272646484729064Rat
631525Pia14Pristane induced arthritis QTL 144.4joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)165571108783402471Rat

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

alimentary part of gastrointestinal system circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High
Medium 3 35 49 33 19 33 1 4 74 35 41 11 1
Low 8 8 8 8 7 7 7
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000067231   ⟹   ENSRNOP00000059797
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1661,765,344 - 61,769,456 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000084858   ⟹   ENSRNOP00000068610
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1658,040,960 - 58,053,593 (+)Ensembl
Rnor_6.0 Ensembl1661,758,917 - 61,771,569 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000102839   ⟹   ENSRNOP00000096357
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1658,046,591 - 58,053,593 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000114626   ⟹   ENSRNOP00000091683
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1658,047,032 - 58,053,593 (+)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:
Reference Protein Sequences
RefSeq Acc Id: NP_001013206   ⟸   NM_001013188
- UniProtKB: Q6PDU4 (UniProtKB/Swiss-Prot),   A0A8I6AQM0 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000059797   ⟸   ENSRNOT00000067231
RefSeq Acc Id: ENSRNOP00000068610   ⟸   ENSRNOT00000084858
RefSeq Acc Id: ENSRNOP00000091683   ⟸   ENSRNOT00000114626
RefSeq Acc Id: ENSRNOP00000096357   ⟸   ENSRNOT00000102839

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, UniProtKB/TrEMBL
  ENSRNOG00055012290 UniProtKB/Swiss-Prot
  ENSRNOG00060011692 UniProtKB/Swiss-Prot
  ENSRNOG00065002862 UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000084858 ENTREZGENE
  ENSRNOT00000084858.2 UniProtKB/Swiss-Prot
  ENSRNOT00000102839.1 UniProtKB/TrEMBL
  ENSRNOT00000114626.1 UniProtKB/TrEMBL
  ENSRNOT00055020914 UniProtKB/Swiss-Prot
  ENSRNOT00060019846 UniProtKB/Swiss-Prot
  ENSRNOT00065003982 UniProtKB/Swiss-Prot
IMAGE_CLONE IMAGE:6887991 IMAGE-MGC_LOAD
InterPro Vps55/LEPROT UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
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, UniProtKB/TrEMBL
  PTHR12050 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam Vps55 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Leprotl1 PhenoGen
RatGTEx ENSRNOG00000012601 RatGTEx
  ENSRNOG00055012290 RatGTEx
  ENSRNOG00060011692 RatGTEx
  ENSRNOG00065002862 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