Retreg1 (reticulophagy regulator 1) - Rat Genome Database

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Gene: Retreg1 (reticulophagy regulator 1) Rattus norvegicus
Analyze
Symbol: Retreg1
Name: reticulophagy regulator 1
RGD ID: 1565003
Description: Predicted to enable endoplasmic reticulum-autophagosome adaptor activity. Predicted to be involved in negative regulation of neuron apoptotic process; reticulophagy; and sensory perception of pain. Predicted to act upstream of or within several processes, including collagen catabolic process; mitophagy; and white fat cell differentiation. Predicted to be located in cis-Golgi network; endoplasmic reticulum; and nuclear lumen. Predicted to be integral component of endoplasmic reticulum membrane. Human ortholog(s) of this gene implicated in hereditary sensory and autonomic neuropathy type 2B. Orthologous to human RETREG1 (reticulophagy regulator 1); INTERACTS WITH 17beta-estradiol; 2,3,7,8-tetrachlorodibenzodioxine; 3,3',4,4',5-pentachlorobiphenyl.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: Fam134b; family with sequence similarity 134, member B; hypothetical protein LOC619558; LOC103689968; LOC619558; protein FAM134B; reticulophagy receptor 1; reticulophagy receptor FAM134B
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2276,335,609 - 76,474,817 (+)NCBImRatBN7.2
mRatBN7.2 Ensembl276,335,609 - 76,493,898 (+)Ensembl
Rnor_6.0278,391,921 - 78,401,569 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl278,103,387 - 78,276,927 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.0 Ensembl278,391,921 - 78,399,987 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0297,821,407 - 97,972,821 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4277,470,558 - 77,566,123 (+)NCBIRGSC3.4rn4RGSC3.4
Celera272,093,456 - 72,182,485 (+)NCBICelera
Cytogenetic Map2q22NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(2,4,5-trichlorophenoxy)acetic acid  (ISO)
1,2-dimethylhydrazine  (ISO)
17alpha-ethynylestradiol  (ISO)
17beta-estradiol  (EXP,ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,4-dibromophenyl 2,4,5-tribromophenyl ether  (ISO)
3,3',4,4',5-pentachlorobiphenyl  (EXP)
3-isobutyl-1-methyl-7H-xanthine  (ISO)
4,4'-sulfonyldiphenol  (ISO)
4-hydroxyphenyl retinamide  (ISO)
aflatoxin B1  (ISO)
aldehydo-D-glucose  (EXP)
aldrin  (ISO)
antirheumatic drug  (ISO)
aristolochic acid  (ISO)
benzo[a]pyrene  (ISO)
bisphenol A  (EXP,ISO)
buspirone  (EXP)
carbamazepine  (ISO)
carbon nanotube  (ISO)
chloroethene  (ISO)
chlorogenic acid  (EXP)
cisplatin  (ISO)
cobalt dichloride  (ISO)
copper atom  (ISO)
copper(0)  (ISO)
copper(II) sulfate  (ISO)
cyclosporin A  (ISO)
D-glucose  (EXP)
decabromodiphenyl ether  (EXP)
dexamethasone  (ISO)
diuron  (EXP)
dorsomorphin  (ISO)
doxorubicin  (ISO)
fenthion  (ISO)
furan  (EXP)
gentamycin  (EXP)
glafenine  (EXP)
glucose  (EXP)
glutathione  (EXP)
indometacin  (ISO)
isotretinoin  (ISO)
lead diacetate  (EXP)
lead(0)  (ISO)
lead(2+)  (ISO)
levofloxacin  (EXP)
menadione  (ISO)
mercury dibromide  (ISO)
methapyrilene  (EXP)
methylmercury chloride  (ISO)
nefazodone  (EXP)
nevirapine  (EXP)
nickel sulfate  (ISO)
O-methyleugenol  (ISO)
oxaliplatin  (EXP)
paracetamol  (ISO)
paraquat  (EXP)
parathion  (ISO)
phenylmercury acetate  (ISO)
pirinixic acid  (ISO)
potassium chromate  (ISO)
pregnenolone 16alpha-carbonitrile  (ISO)
progesterone  (ISO)
propanal  (ISO)
propiconazole  (ISO)
raloxifene  (ISO)
SB 431542  (ISO)
silicon dioxide  (ISO)
sodium dichromate  (EXP)
tamoxifen  (ISO)
temozolomide  (ISO)
tetrachloroethene  (ISO)
tetrachloromethane  (EXP,ISO)
topotecan  (EXP)
trichostatin A  (ISO)
valproic acid  (ISO)
vinclozolin  (EXP)
vitamin E  (ISO)
zoledronic acid  (ISO)

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. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
3. GOA pipeline RGD automated data pipeline
4. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
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.
Additional References at PubMed
PMID:19838196   PMID:26040720   PMID:32086669   PMID:32716134   PMID:34212292  


Genomics

Comparative Map Data
Retreg1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2276,335,609 - 76,474,817 (+)NCBImRatBN7.2
mRatBN7.2 Ensembl276,335,609 - 76,493,898 (+)Ensembl
Rnor_6.0278,391,921 - 78,401,569 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl278,103,387 - 78,276,927 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.0 Ensembl278,391,921 - 78,399,987 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0297,821,407 - 97,972,821 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4277,470,558 - 77,566,123 (+)NCBIRGSC3.4rn4RGSC3.4
Celera272,093,456 - 72,182,485 (+)NCBICelera
Cytogenetic Map2q22NCBI
RETREG1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38516,473,053 - 16,616,997 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p13 Ensembl516,473,038 - 16,617,101 (-)EnsemblGRCh38hg38GRCh38
GRCh37516,473,162 - 16,617,106 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36516,526,147 - 16,670,118 (-)NCBINCBI36hg18NCBI36
Celera516,496,766 - 16,640,783 (-)NCBI
Cytogenetic Map5p15.1NCBI
HuRef516,445,059 - 16,589,261 (-)NCBIHuRef
CHM1_1516,473,095 - 16,617,108 (-)NCBICHM1_1
T2T-CHM13v2.0516,412,398 - 16,556,330 (-)NCBI
Retreg1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391525,840,795 - 25,973,782 (+)NCBIGRCm39mm39
GRCm39 Ensembl1525,843,266 - 25,973,773 (+)Ensembl
GRCm381525,843,298 - 25,973,696 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1525,843,180 - 25,973,687 (+)EnsemblGRCm38mm10GRCm38
MGSCv371525,773,019 - 25,903,442 (+)NCBIGRCm37mm9NCBIm37
MGSCv361525,787,989 - 25,918,412 (+)NCBImm8
Celera1526,616,789 - 26,745,263 (+)NCBICelera
Cytogenetic Map15B1NCBI
Retreg1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554265,574,216 - 5,688,236 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049554265,574,207 - 5,688,236 (-)NCBIChiLan1.0ChiLan1.0
RETREG1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.1516,612,583 - 16,756,808 (-)NCBIpanpan1.1PanPan1.1panPan2
Mhudiblu_PPA_v0516,774,596 - 16,920,948 (-)NCBIMhudiblu_PPA_v0panPan3
RETREG1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1486,817,391 - 86,921,119 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha486,323,200 - 86,438,561 (+)NCBI
ROS_Cfam_1.0487,442,470 - 87,564,197 (+)NCBI
ROS_Cfam_1.0 Ensembl487,442,238 - 87,587,920 (+)Ensembl
UMICH_Zoey_3.1486,965,905 - 87,080,546 (+)NCBI
UNSW_CanFamBas_1.0487,202,448 - 87,317,283 (+)NCBI
UU_Cfam_GSD_1.0488,059,445 - 88,174,500 (+)NCBI
Retreg1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024407213210,176,692 - 210,316,851 (-)NCBI
SpeTri2.0NW_00493648019,114,753 - 19,253,346 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
RETREG1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl165,726,494 - 5,879,515 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1165,726,493 - 5,879,461 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2166,170,402 - 6,324,535 (-)NCBISscrofa10.2Sscrofa10.2susScr3
RETREG1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1416,153,003 - 16,297,252 (-)NCBIChlSab1.1chlSab2
ChlSab1.1 Ensembl416,154,694 - 16,297,161 (-)EnsemblChlSab1.1chlSab2
Vero_WHO_p1.0NW_02366606412,181,901 - 12,326,336 (+)NCBIVero_WHO_p1.0
Retreg1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462475113,376,502 - 13,501,918 (-)EnsemblHetGla_female_1.0hetGla2
HetGla 1.0NW_00462475113,377,583 - 13,502,144 (-)NCBIHetGla_female_1.0hetGla2

Position Markers
RH132335  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2276,336,677 - 76,336,866 (+)MAPPERmRatBN7.2
Rnor_6.0278,104,525 - 78,104,713NCBIRnor6.0
Rnor_5.0297,822,444 - 97,822,632UniSTSRnor5.0
RGSC_v3.4277,420,241 - 77,420,429UniSTSRGSC3.4
Celera272,045,887 - 72,046,075UniSTS
RH 3.4 Map2498.9UniSTS
Cytogenetic Map2q22UniSTS
RH143838  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2276,473,375 - 76,473,490 (+)MAPPERmRatBN7.2
Rnor_6.0278,400,141 - 78,400,255NCBIRnor6.0
Rnor_6.0278,255,668 - 78,255,782NCBIRnor6.0
Rnor_5.0297,971,380 - 97,971,494UniSTSRnor5.0
RGSC_v3.4277,564,695 - 77,564,809UniSTSRGSC3.4
Celera272,181,057 - 72,181,171UniSTS
RH 3.4 Map2503.0UniSTS
Cytogenetic Map2q22UniSTS
BE120148  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21645,153,049 - 45,153,261 (+)MAPPERmRatBN7.2
Rnor_6.01648,299,786 - 48,299,997NCBIRnor6.0
Rnor_5.01648,011,849 - 48,012,060UniSTSRnor5.0
RGSC_v3.41648,376,260 - 48,376,471UniSTSRGSC3.4
RGSC_v3.4277,468,539 - 77,468,750UniSTSRGSC3.4
Celera1643,159,457 - 43,159,668UniSTS
RH 3.4 Map16451.5UniSTS
Cytogenetic Map2q22UniSTS


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
61355Bp36Blood pressure QTL 362.9blood pressure trait (VT:0000183)systolic blood pressure (CMO:0000004)25873687102844969Rat
1302794Stl27Serum triglyceride level QTL 274.40.0001blood triglyceride amount (VT:0002644)plasma triglyceride level (CMO:0000548)225413423143657569Rat
1358894Kidm24Kidney mass QTL 244.03kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)225413423157142209Rat
1358899Kidm23Kidney mass QTL 233.88kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)225413423157142209Rat
1358901Cm38Cardiac mass QTL 382heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)225413423157142209Rat
1358904Cm39Cardiac mass QTL 392.26heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)225413423157142209Rat
1358910Kidm27Kidney mass QTL 275.77kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)225413423157142209Rat
1358911Kidm28Kidney mass QTL 285.42kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)225413423157142209Rat
1358913Cm41Cardiac mass QTL 412.73heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)225413423203928301Rat
1358917Cm42Cardiac mass QTL 422.82heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)225413423203928301Rat
1358887Bw50Body weight QTL 502.39body mass (VT:0001259)body weight (CMO:0000012)225413652157142078Rat
1358908Bw49Body weight QTL 493.36body mass (VT:0001259)body weight (CMO:0000012)225413652157142078Rat
1354617Bp240Blood pressure QTL 2404arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)22691781781754745Rat
1354617Bp240Blood pressure QTL 2404arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)22691781781754745Rat
1354617Bp240Blood pressure QTL 2404arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)22691781781754745Rat
1354603Bp243Blood pressure QTL 2433.9arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)226917817127469484Rat
2290453Scl55Serum cholesterol level QTL 552.83blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)226917817136917119Rat
10755436Coatc8Coat color QTL 80.02431coat/hair pigmentation trait (VT:0010463)pigmented ventral coat/hair area to total ventral coat/hair area ratio (CMO:0001812)23502311780023117Rat
61371Edpm1Estrogen-dependent pituitary mass QTL 140.05pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)23513484188029593Rat
70174BpQTLCluster2Blood pressure QTL cluster 24.24arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)240067944102785628Rat
70174BpQTLCluster2Blood pressure QTL cluster 24.24arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)240067944102785628Rat
70174BpQTLCluster2Blood pressure QTL cluster 24.24arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)240067944102785628Rat
70174BpQTLCluster2Blood pressure QTL cluster 24.24arterial blood pressure trait (VT:2000000)pulse pressure (CMO:0000292)240067944102785628Rat
70174BpQTLCluster2Blood pressure QTL cluster 24.24arterial blood pressure trait (VT:2000000)absolute change in mean arterial blood pressure (CMO:0000533)240067944102785628Rat
2293835Kiddil5Kidney dilation QTL 53.8kidney pelvis morphology trait (VT:0004194)hydronephrosis severity score (CMO:0001208)242804607157142209Rat
2293843Kiddil6Kidney dilation QTL 63.1kidney pelvis morphology trait (VT:0004194)hydronephrosis severity score (CMO:0001208)242804607182042367Rat
1298074Bp164Blood pressure QTL 1640.003arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)242804607202447032Rat
1298085Bp165Blood pressure QTL 1650.0006arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)242804607202447032Rat
61467Bp14Blood pressure QTL 142.2arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)243154682202446871Rat
61467Bp14Blood pressure QTL 142.2arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)243154682202446871Rat
2293676Bmd19Bone mineral density QTL 1910.70.0001femur mineral mass (VT:0010011)total volumetric bone mineral density (CMO:0001728)243162366111362592Rat
2293682Bmd24Bone mineral density QTL 248.90.0001femur mineral mass (VT:0010011)cortical volumetric bone mineral density (CMO:0001730)243162366111362592Rat
2293671Bss44Bone structure and strength QTL 4410.970.0001lumbar vertebra morphology trait (VT:0010494)lumbar vertebra cortical cross-sectional area (CMO:0001690)243162366148478373Rat
631208Bw1Body weight QTL15.09mesenteric fat pad mass (VT:0010427)mesenteric fat pad weight to body weight ratio (CMO:0000654)24317101783575226Rat
1354601Slep1Serum leptin concentration QTL 15.39blood leptin amount (VT:0005667)serum leptin level (CMO:0000780)243171017184114403Rat
631266Bp132Blood pressure QTL 1320.0005arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)246123260202447032Rat
1331760Bp206Blood pressure QTL 2063.62454arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)256043031202447032Rat
1582246Cm60Cardiac mass QTL 605.8heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)25760561276539510Rat
1558648Smcn1Smooth muscle cell number QTL 10.039blood vessel smooth muscle cell quantity (VT:0010525)aorta smooth muscle cell count per unit vessel length (CMO:0001646)259134147127460910Rat
5684990Bmd82Bone mineral density QTL 822.8tibia mineral mass (VT:1000283)bone mineral content (CMO:0001554)259324377103795077Rat
5684996Bmd85Bone mineral density QTL 854.70.024tibia mineral mass (VT:1000283)bone mineral density (CMO:0001226)259324377103795077Rat
61438Cia7Collagen induced arthritis QTL 74.60.0001joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)259324377141596857Rat
631500Bp99Blood pressure QTL 992.5arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)259324719102755241Rat
1578777Stresp15Stress response QTL 1520.05blood aldosterone amount (VT:0005346)plasma aldosterone level (CMO:0000551)259846005104846005Rat
2306903Bp336Blood pressure QTL 3360.01arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)264366971109366971Rat
1298080Bp163Blood pressure QTL 1630.02arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)266118275202447032Rat
1354648Bp239Blood pressure QTL 2390.001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)266118463226797303Rat
7411551Bw131Body weight QTL 13129.60.001body mass (VT:0001259)body weight gain (CMO:0000420)267942638112942638Rat
1558653Prcr1Prostate cancer resistance QTL 15prostate integrity trait (VT:0010571)area of ventral prostate occupied by tumorous lesions to total ventral prostate area ratio (CMO:0000899)272532993157142209Rat
1359034Bp274Blood pressure QTL 274arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)27478666494359546Rat
1359034Bp274Blood pressure QTL 274arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)27478666494359546Rat
1354605Rf48Renal function QTL 482.9blood creatinine amount (VT:0005328)plasma creatinine level (CMO:0000537)274786664206665859Rat


Expression


Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000063951   ⟹   ENSRNOP00000062258
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl276,335,609 - 76,474,796 (+)Ensembl
Rnor_6.0 Ensembl278,103,387 - 78,257,134 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000066879   ⟹   ENSRNOP00000060898
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl278,262,839 - 78,276,927 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000079455   ⟹   ENSRNOP00000069183
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl276,441,501 - 76,474,802 (+)Ensembl
Rnor_6.0 Ensembl278,391,921 - 78,399,987 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000084541   ⟹   ENSRNOP00000075424
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl276,463,167 - 76,493,898 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000089551   ⟹   ENSRNOP00000073087
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl276,468,405 - 76,488,847 (+)Ensembl
Rnor_6.0 Ensembl278,245,459 - 78,271,382 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000089805   ⟹   ENSRNOP00000075409
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl276,443,711 - 76,474,802 (+)Ensembl
Rnor_6.0 Ensembl278,247,448 - 78,255,514 (+)Ensembl
RefSeq Acc Id: NM_001034912   ⟹   NP_001030084
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2276,335,609 - 76,474,804 (+)NCBI
Rnor_6.0278,391,921 - 78,401,569 (+)NCBI
Rnor_5.0297,821,407 - 97,972,821 (+)NCBI
RGSC_v3.4277,470,558 - 77,566,123 (+)RGD
Celera272,093,456 - 72,182,485 (+)RGD
Sequence:
RefSeq Acc Id: XM_006232084   ⟹   XP_006232146
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2276,441,262 - 76,474,817 (+)NCBI
Sequence:
RefSeq Acc Id: XM_039103026   ⟹   XP_038958954
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2276,400,342 - 76,474,817 (+)NCBI
RefSeq Acc Id: XM_039103027   ⟹   XP_038958955
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2276,400,583 - 76,474,817 (+)NCBI
Reference Sequences
RefSeq Acc Id: NP_001030084   ⟸   NM_001034912
- UniProtKB: Q5FVM3 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: ENSRNOP00000069183   ⟸   ENSRNOT00000079455
RefSeq Acc Id: XP_038958954   ⟸   XM_039103026
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038958955   ⟸   XM_039103027
- Peptide Label: isoform X3
RefSeq Acc Id: XP_006232146   ⟸   XM_006232084
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: ENSRNOP00000062258   ⟸   ENSRNOT00000063951
RefSeq Acc Id: ENSRNOP00000075409   ⟸   ENSRNOT00000089805
RefSeq Acc Id: ENSRNOP00000073087   ⟸   ENSRNOT00000089551
RefSeq Acc Id: ENSRNOP00000060898   ⟸   ENSRNOT00000066879
RefSeq Acc Id: ENSRNOP00000075424   ⟸   ENSRNOT00000084541

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q5FVM3-F1-model_v2 AlphaFold Q5FVM3 1-480 view protein structure

Transcriptome

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


Strain Variation

Strain Sequence Variants (MRatBN7.2)
ACI/EurMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
ACI/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN-Lx/CubMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/NHsdMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/NHsdMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/SsN (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BUF/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BXH2/CubMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BXH3/CubMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
DA/OlaHsd (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/DuCrl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/NCrl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FHH/EurMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FXLE16/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FXLE18/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
GK/FarMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB10/IpcvMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB2/IpcvMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB20/IpcvMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB31/IpcvMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB4/IpcvMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LE/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEW/Crl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF10A/StmMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF11/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1A/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1C/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF2B/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF3/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF4/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LH/MavRrrcAek (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LL/MavRrrcAek (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LN/MavRrrcAek (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/NRrrcMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
MR/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
MWF/Hsd (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
PVG/Seac (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SHR/OlalpcvMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SHRSP/A3NCrl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SR/JrHsd (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SS/JrHsdMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WAG/RijCrl (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/NCrl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WN/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
Damaging Variants


Assembly: Rnor_5.0

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
2 97970991 97970992 C T snv BN/SsNSlc (KyushuU)


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1565003 AgrOrtholog
BioCyc Gene G2FUF-53940 BioCyc
Ensembl Genes ENSRNOG00000010589 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  ENSRNOG00000057522 Ensembl
Ensembl Protein ENSRNOP00000062258 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSRNOP00000069183 ENTREZGENE
  ENSRNOP00000069183.2 UniProtKB/TrEMBL
  ENSRNOP00000073087.2 UniProtKB/TrEMBL
  ENSRNOP00000075409 ENTREZGENE
  ENSRNOP00000075409.2 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000063951 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSRNOT00000079455 ENTREZGENE
  ENSRNOT00000079455.2 UniProtKB/TrEMBL
  ENSRNOT00000089551.2 UniProtKB/TrEMBL
  ENSRNOT00000089805 ENTREZGENE
  ENSRNOT00000089805.2 UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7371502 IMAGE-MGC_LOAD
InterPro RETREG1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  RETREG1/3 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  ZN622/Rei1/Reh1_Znf-C2H2 UniProtKB/TrEMBL
  Znf_C2H2_jaz UniProtKB/TrEMBL
  Znf_C2H2_sf UniProtKB/TrEMBL
  Znf_C2H2_type UniProtKB/TrEMBL
  Znf_U1 UniProtKB/TrEMBL
KEGG Report rno:619558 UniProtKB/Swiss-Prot
MGC_CLONE MGC:109057 IMAGE-MGC_LOAD
NCBI Gene 619558 ENTREZGENE
PANTHER PTHR28659 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PTHR28659:SF3 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam zf-C2H2_2 UniProtKB/TrEMBL
  zf-C2H2_jaz UniProtKB/TrEMBL
PhenoGen Retreg1 PhenoGen
PROSITE ZINC_FINGER_C2H2_1 UniProtKB/TrEMBL
SMART ZnF_C2H2 UniProtKB/TrEMBL
  ZnF_U1 UniProtKB/TrEMBL
Superfamily-SCOP SSF57667 UniProtKB/TrEMBL
UniProt A0A0G2JUQ3_RAT UniProtKB/TrEMBL
  A0A0G2K4L3_RAT UniProtKB/TrEMBL
  A0A0G2KAI5_RAT UniProtKB/TrEMBL
  Q5FVM3 ENTREZGENE, UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2021-03-09 Retreg1  reticulophagy regulator 1  LOC103689968  protein FAM134B  Data Merged 737654 PROVISIONAL
2017-03-27 Retreg1  reticulophagy regulator 1  Fam134b  family with sequence similarity 134, member B  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2014-08-25 LOC103689968  protein FAM134B      Symbol and Name status set to provisional 70820 PROVISIONAL
2008-03-05 Fam134b  family with sequence similarity 134, member B  LOC619558  hypothetical protein LOC619558  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-02-09 LOC619558  hypothetical protein LOC619558      Symbol and Name status set to provisional 70820 PROVISIONAL