Rtl1 (retrotransposon-like 1) - 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: Rtl1 (retrotransposon-like 1) Rattus norvegicus
Analyze
Symbol: Rtl1
Name: retrotransposon-like 1
RGD ID: 11378340
Description: Predicted to be involved in gene expression and placenta development. Predicted to act upstream of or within several processes, including angiogenesis; labyrinthine layer development; and skeletal muscle satellite cell proliferation. Predicted to be active in Z disc. Orthologous to human RTL1 (retrotransposon Gag like 1); INTERACTS WITH 3,7-dihydropurine-6-thione; bisphenol A; mercaptopurine.
Type: protein-coding
RefSeq Status: MODEL
Previously known as: AABR07065531.3; retrotransposon-like protein 1
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr86134,325,231 - 134,335,780 (-)NCBIGRCr8
mRatBN7.26128,543,904 - 128,549,384 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl6128,543,939 - 128,549,182 (-)EnsemblmRatBN7.2 Ensembl
Rnor_6.06133,710,207 - 133,721,191 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl6133,711,154 - 133,716,847 (-)NCBIRnor6.0rn6Rnor6.0
Cytogenetic Map6q32NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component
Z disc  (ISO)

References

Genomics

Comparative Map Data
Rtl1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr86134,325,231 - 134,335,780 (-)NCBIGRCr8
mRatBN7.26128,543,904 - 128,549,384 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl6128,543,939 - 128,549,182 (-)EnsemblmRatBN7.2 Ensembl
Rnor_6.06133,710,207 - 133,721,191 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl6133,711,154 - 133,716,847 (-)NCBIRnor6.0rn6Rnor6.0
Cytogenetic Map6q32NCBI
RTL1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh3814100,879,753 - 100,903,722 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl14100,879,753 - 100,903,722 (-)EnsemblGRCh38hg38GRCh38
GRCh3714101,346,090 - 101,370,059 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 3614100,416,802 - 100,420,878 (-)NCBINCBI36Build 36hg18NCBI36
Celera1481,400,811 - 81,405,006 (-)NCBICelera
Cytogenetic Map14q32.2-q32.31NCBI
HuRef1481,528,723 - 81,532,918 (-)NCBIHuRef
CHM1_114101,285,181 - 101,289,375 (-)NCBICHM1_1
T2T-CHM13v2.01495,115,189 - 95,139,155 (-)NCBIT2T-CHM13v2.0
Rtl1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm3912109,531,141 - 109,570,852 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl12109,555,627 - 109,566,764 (-)EnsemblGRCm39 Ensembl
GRCm3812109,564,900 - 109,604,418 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl12109,589,193 - 109,600,330 (-)EnsemblGRCm38mm10GRCm38
MGSCv3712110,828,379 - 110,833,613 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv3612110,037,976 - 110,043,210 (-)NCBIMGSCv36mm8
Celera12110,784,688 - 110,790,104 (-)NCBICelera
Cytogenetic Map12F1NCBI
cM Map1260.38NCBI
Rtl1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_004955538176,998 - 181,184 (-)EnsemblChiLan1.0
ChiLan1.0NW_004955538177,078 - 181,557 (-)NCBIChiLan1.0ChiLan1.0
RTL1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v215102,031,676 - 102,058,137 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan114101,246,821 - 101,262,055 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01481,498,463 - 81,529,551 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.114100,811,749 - 100,816,359 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl14100,812,227 - 100,816,306 (-)Ensemblpanpan1.1panPan2
RTL1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1869,102,081 - 69,126,209 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl869,102,644 - 69,106,687 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha868,619,982 - 68,646,853 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0869,385,732 - 69,412,597 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl869,386,134 - 69,390,177 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1869,047,435 - 69,074,288 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0869,113,293 - 69,140,165 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0869,511,471 - 69,534,272 (-)NCBIUU_Cfam_GSD_1.0
Rtl1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_0244086405,411,964 - 5,434,210 (+)NCBIHiC_Itri_2
SpeTri2.0NW_0049366044,648,928 - 4,655,418 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
RTL1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl7121,707,122 - 121,711,414 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.17121,706,955 - 121,720,472 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.27132,097,039 - 132,100,222 (-)NCBISscrofa10.2Sscrofa10.2susScr3
RTL1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12478,840,599 - 78,865,282 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl2478,842,440 - 78,846,519 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366605365,999,877 - 66,028,159 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Rtl1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046247343,219,270 - 3,227,154 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Rtl1
43 total Variants

QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
12801411Schws8Schwannoma susceptibility QTL 8nervous system integrity trait (VT:0010566)percentage of study population developing trigeminal nerve neurilemmomas during a period of time (CMO:0002017)694968928139968928Rat
1331797Bp213Blood pressure QTL 2133.291arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)6104085867128713626Rat
1331799Bp211Blood pressure QTL 2113.66407arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)672202632130919985Rat
71111Iddm8Insulin dependent diabetes mellitus QTL 81.90.002blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)6105156861140994061Rat
1358355Srcrt4Stress Responsive Cort QTL 46.39blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)6100364669140994061Rat
61329Eae9Experimental allergic encephalomyelitis QTL 93.7body mass (VT:0001259)change in body weight (CMO:0002045)6122549046140994061Rat
2312560Pur20Proteinuria QTL 202.10.005urine total protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)6125628133137801795Rat
2313399Anxrr28Anxiety related response QTL 28aggression-related behavior trait (VT:0015014)tameness/aggressiveness composite score (CMO:0002136)6100671796132340886Rat
1331725Bp212Blood pressure QTL 2123.52475arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)693701310128713626Rat
8552796Vie3Viral induced encephalitis QTL 32.6brain integrity trait (VT:0010579)encephalitis incidence/prevalence measurement (CMO:0002361)696833997140994061Rat
4145118Mcs26Mammary carcinoma susceptibility QTL 260.0001mammary gland integrity trait (VT:0010552)post-insult time to mammary tumor formation (CMO:0000345)6106752656132339866Rat
1581563Uae33Urinary albumin excretion QTL 33urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)672227641130729205Rat
10054138Gmadr3Adrenal mass QTL 33.680.00045adrenal gland mass (VT:0010420)both adrenal glands wet weight (CMO:0000164)685140138130140138Rat
1641917Colcr5Colorectal carcinoma resistance QTL 53.180.0009intestine integrity trait (VT:0010554)benign colorectal tumor number (CMO:0001795)6122549046137801795Rat
61414Pia3Pristane induced arthritis QTL 34.5joint integrity trait (VT:0010548)post-insult time to onset of experimental arthritis (CMO:0001450)694968928137848904Rat
724513Uae14Urinary albumin excretion QTL 146.5urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)685311061133478515Rat
2303624Vencon5Ventilatory control QTL 54.45respiration trait (VT:0001943)minute ventilation (CMO:0000132)688047916133047916Rat
731173Uae22Urinary albumin excretion QTL 2210.1urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)665531555140994061Rat
10054123Srcrt6Stress Responsive Cort QTL 62.50.0043blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)685140138130140138Rat
724536Uae7Urinary albumin excretion QTL 73.5urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)672202632130729475Rat
737976Pia24Pristane induced arthritis QTL 24joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)6112636280140994061Rat
1298087Iddm18Insulin dependent diabetes mellitus QTL 180.0001urine glucose amount (VT:0001758)percentage of study population developing diabetes mellitus during a period of time (CMO:0001114)6116506292130245370Rat
1581550Pur8Proteinuria QTL 8urine total protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)672227641130729205Rat
738034Anxrr5Anxiety related response QTL 55.9exploratory behavior trait (VT:0010471)percentage of entries into a discrete space in an experimental apparatus (CMO:0000961)684130881129130881Rat
2290393Uae37Urinary albumin excretion QTL 370.0001urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)665531555140994061Rat
1300076Glom8Glomerulus QTL 879e-09kidney glomerulus morphology trait (VT:0005325)count of superficial glomeruli directly contacting the kidney surface (CMO:0001001)686894788131894788Rat
2293085Iddm29Insulin dependent diabetes mellitus QTL 297.66blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)6122549046140286318Rat


Expression


Sequence


Ensembl Acc Id: ENSRNOT00000072399   ⟹   ENSRNOP00000066132
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl6128,543,939 - 128,549,182 (-)Ensembl
RefSeq Acc Id: XM_039113376   ⟹   XP_038969304
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr86134,325,231 - 134,335,780 (-)NCBI
mRatBN7.26128,543,904 - 128,549,384 (-)NCBI
Protein Sequences
Protein RefSeqs XP_038969304 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000066132.2
RefSeq Acc Id: XP_038969304   ⟸   XM_039113376
- UniProtKB: M0R9G4 (UniProtKB/TrEMBL)
Ensembl Acc Id: ENSRNOP00000066132   ⟸   ENSRNOT00000072399
Protein Domains
DUF4939   Reverse transcriptase/retrotransposon-derived

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-M0R9G4-F1-model_v2 AlphaFold M0R9G4 1-1604 view protein structure

Transcriptome

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


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:11378340 AgrOrtholog
BioCyc Gene G2FUF-36242 BioCyc
Ensembl Genes ENSRNOG00000048751 Ensembl, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000072399.2 UniProtKB/TrEMBL
Gene3D-CATH 2.40.70.10 UniProtKB/TrEMBL
  3.30.70.270 UniProtKB/TrEMBL
InterPro DNA/RNA_pol_sf UniProtKB/TrEMBL
  DUF4939 UniProtKB/TrEMBL
  LDOC1-rel UniProtKB/TrEMBL
  Peptidase_aspartic_dom_sf UniProtKB/TrEMBL
  Rev_trsase/Diguanyl_cyclase UniProtKB/TrEMBL
  RT_RNaseH_2 UniProtKB/TrEMBL
NCBI Gene Rtl1 ENTREZGENE
PANTHER PTHR15503 UniProtKB/TrEMBL
  RETROTRANSPOSON-LIKE PROTEIN 1 UniProtKB/TrEMBL
Pfam DUF4939 UniProtKB/TrEMBL
  RT_RNaseH_2 UniProtKB/TrEMBL
PhenoGen Rtl1 PhenoGen
RatGTEx ENSRNOG00000048751 RatGTEx
Superfamily-SCOP SSF50630 UniProtKB/TrEMBL
  SSF56672 UniProtKB/TrEMBL
UniProt M0R9G4 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2022-06-02 Rtl1  retrotransposon-like 1  AABR07065531.3    Data merged from RGD:15005595 737654 PROVISIONAL
2021-09-02 AABR07065531.3    Rtl1  retrotransposon-like 1  Symbol and/or name change 19259462 PROVISIONAL
2021-08-09 Rtl1  retrotransposon-like 1  AABR07065531.3    Symbol and/or name change 19259462 PROVISIONAL
2019-11-08 AABR07065531.3        Symbol and Name status set to provisional 45752 PROVISIONAL
2016-08-02 Rtl1  retrotransposon-like 1      Symbol and Name status set to provisional 70820 PROVISIONAL