Prelid3b (PRELI domain containing 3B) - Rat Genome Database

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Gene: Prelid3b (PRELI domain containing 3B) Rattus norvegicus
Analyze
Symbol: Prelid3b
Name: PRELI domain containing 3B
RGD ID: 1594395
Description: Predicted to enable phosphatidic acid transfer activity. Predicted to be involved in phospholipid transport. Predicted to be active in mitochondrial intermembrane space. Orthologous to human PRELID3B (PRELI domain containing 3B); INTERACTS WITH dioxygen; finasteride; flutamide.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: MGC72955; PRELI domain containing protein 3B; protein slowmo homolog 2; similar to RIKEN cDNA 2310042G06; Slmo2; slowmo homolog 2; slowmo homolog 2 (Drosophila)
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
mRatBN7.23163,263,059 - 163,271,055 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl3163,262,985 - 163,271,181 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx3167,061,802 - 167,069,795 (-)NCBIRnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.03175,558,234 - 175,566,215 (-)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.03173,302,660 - 173,310,653 (-)NCBIRnor_WKY
Rnor_6.03172,567,092 - 172,574,382 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl3172,567,732 - 172,574,333 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.03178,613,098 - 178,620,388 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Celera3162,436,443 - 162,444,456 (-)NCBICelera
Cytogenetic Map3q43NCBI
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

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:18614015  


Genomics

Comparative Map Data
Prelid3b
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.23163,263,059 - 163,271,055 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl3163,262,985 - 163,271,181 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx3167,061,802 - 167,069,795 (-)NCBIRnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.03175,558,234 - 175,566,215 (-)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.03173,302,660 - 173,310,653 (-)NCBIRnor_WKY
Rnor_6.03172,567,092 - 172,574,382 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl3172,567,732 - 172,574,333 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.03178,613,098 - 178,620,388 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Celera3162,436,443 - 162,444,456 (-)NCBICelera
Cytogenetic Map3q43NCBI
PRELID3B
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh382059,033,145 - 59,042,786 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p13 Ensembl2059,033,145 - 59,042,809 (-)EnsemblGRCh38hg38GRCh38
GRCh372057,608,200 - 57,617,841 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 362057,041,595 - 57,051,296 (-)NCBINCBI36Build 36hg18NCBI36
Build 342057,041,599 - 57,051,264NCBI
Celera2054,348,621 - 54,358,322 (-)NCBICelera
Cytogenetic Map20q13.32NCBI
HuRef2054,395,117 - 54,404,818 (-)NCBIHuRef
CHM1_12057,509,588 - 57,519,296 (-)NCBICHM1_1
T2T-CHM13v2.02060,816,258 - 60,825,889 (-)NCBIT2T-CHM13v2.0
Prelid3b
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm392174,306,884 - 174,314,734 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl2174,306,860 - 174,314,874 (-)EnsemblGRCm39 Ensembl
GRCm382174,465,076 - 174,473,000 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl2174,465,067 - 174,473,081 (-)EnsemblGRCm38mm10GRCm38
MGSCv372174,290,592 - 174,298,442 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv362174,108,030 - 174,115,880 (-)NCBIMGSCv36mm8
Celera2180,425,854 - 180,433,694 (-)NCBICelera
Cytogenetic Map2H4NCBI
Prelid3b
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_004955445551,951 - 563,324 (+)EnsemblChiLan1.0
ChiLan1.0NW_004955445552,634 - 563,324 (+)NCBIChiLan1.0ChiLan1.0
PRELID3B
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.12056,745,209 - 56,754,944 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl2056,745,209 - 56,754,944 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v02055,384,087 - 55,393,784 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PRELID3B
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12443,774,582 - 43,784,416 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2443,775,975 - 43,784,400 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2443,020,639 - 43,030,411 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.02444,640,674 - 44,650,446 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2444,640,674 - 44,650,440 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12443,744,160 - 43,753,930 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02443,862,862 - 43,872,628 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02444,522,725 - 44,532,506 (-)NCBIUU_Cfam_GSD_1.0
Prelid3b
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024408640181,784,662 - 181,792,834 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365301,513,616 - 1,522,650 (-)EnsemblSpeTri2.0
SpeTri2.0NW_0049365301,513,616 - 1,522,652 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
PRELID3B
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.11759,175,043 - 59,185,078 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21766,545,461 - 66,555,496 (-)NCBISscrofa10.2Sscrofa10.2susScr3
PRELID3B
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.125,099,068 - 5,109,118 (+)NCBIChlSab1.1ChlSab1.1chlSab2
Vero_WHO_p1.0NW_02366605053,150,623 - 53,160,729 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Prelid3b
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462474125,324,148 - 25,335,670 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462474125,324,146 - 25,335,675 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Prelid3b
24 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:83
Count of miRNA genes:75
Interacting mature miRNAs:76
Transcripts:ENSRNOT00000075573
Prediction methods:Miranda, Rnahybrid
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
70216Cm14Cardiac mass QTL 142.1heart mass (VT:0007028)heart wet weight (CMO:0000069)331172320163586636Rat
1559282Emca5Estrogen-induced mammary cancer QTL 53.9mammary gland integrity trait (VT:0010552)percentage of study population developing mammary tumors during a period of time (CMO:0000948)343827364169034231Rat
2312659Slep7Serum leptin concentration QTL 70.001blood leptin amount (VT:0005667)serum leptin level (CMO:0000780)398535255168026850Rat
2312670Bw94Body weight QTL 940.01inguinal fat pad mass (VT:0010424)inguinal fat pad weight to body weight ratio (CMO:0001253)398535255168026850Rat
2312673Scl63Serum cholesterol level QTL 630.001blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)398535255168026850Rat
1576306Schws3Schwannoma susceptibility QTL 30.001nervous system integrity trait (VT:0010566)percentage of study population developing trigeminal nerve neurilemmomas during a period of time (CMO:0002017)3118839124163839124Rat
1598877Bp285Blood pressure QTL 2851.50.03arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)3120538241165538241Rat
10755461Coatc16Coat color QTL 16coat/hair pigmentation trait (VT:0010463)pigmented ventral coat/hair area to total ventral coat/hair area ratio (CMO:0001812)3122438700167438700Rat
631541Bp81Blood pressure QTL 814arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)3124122556169034231Rat
2303620Vencon4Ventilatory control QTL 43.9respiration trait (VT:0001943)tidal volume (CMO:0000222)3127162703168026850Rat
1578656Vnigr2Vascular neointimal growth QTL 24.2artery morphology trait (VT:0002191)lesioned artery residual lumen area (CMO:0001417)3130656562169034231Rat
1578653Vnigr3Vascular neointimal growth QTL 33.1artery morphology trait (VT:0002191)artery neointimal hyperplastic lesion area (CMO:0001414)3130656562169034231Rat
9589106Insul23Insulin level QTL 2313.860.001blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)3131635904169034231Rat
2298477Eau4Experimental allergic uveoretinitis QTL 40.0011uvea integrity trait (VT:0010551)experimental autoimmune uveitis score (CMO:0001504)3137398739169034231Rat
8552952Pigfal13Plasma insulin-like growth factor 1 level QTL 13blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)3138799500169034231Rat
1298068Bp167Blood pressure QTL 1670.004arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)3141074471169034231Rat
2317883Alcrsp26Alcohol response QTL 261.80.63response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)3145526770169034231Rat
12879871Am7Aortic mass QTL 70.001aorta mass (VT:0002845)aorta weight to aorta length to body weight ratio (CMO:0002722)3145925360166177555Rat
12879872Cm97Cardiac mass QTL 970.001heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)3145925360166177555Rat
12879873Cm96Cardiac mass QTL 960.001heart mass (VT:0007028)heart wet weight to body weight ratio (CMO:0002408)3145925360166177555Rat
12879874Cm98Cardiac mass QTL 980.005heart right ventricle mass (VT:0007033)heart right ventricle weight to body weight ratio (CMO:0000914)3145925360166177555Rat
12879875Kidm64Kidney mass QTL 640.001kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)3145925360166177555Rat
12879876Bw182Body weight QTL 1820.003body mass (VT:0001259)body weight (CMO:0000012)3145925360166177555Rat
2301411Bp320Blood pressure QTL 3200.001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)3145925360166177555Rat
8552791Vie2Viral induced encephalitis QTL 24.1brain integrity trait (VT:0010579)encephalitis incidence/prevalence measurement (CMO:0002361)3145956084169034231Rat
1578666Vnigr1Vascular neointimal growth QTL 14.6artery morphology trait (VT:0002191)artery lumen area (CMO:0001409)3149040888168026850Rat
1300161Rf10Renal function QTL 103.57renal blood flow trait (VT:2000006)absolute change in renal vascular resistance (CMO:0001900)3161192952169034231Rat

Markers in Region
RH141286  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.23163,263,089 - 163,263,299 (+)MAPPERmRatBN7.2
Rnor_6.03172,567,123 - 172,567,332NCBIRnor6.0
Rnor_5.03178,613,129 - 178,613,338UniSTSRnor5.0
Celera3162,436,474 - 162,436,683UniSTS
RH 3.4 Map31496.9UniSTS
Cytogenetic Map14q21UniSTS


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 43 57 41 19 41 8 11 74 35 41 11 8
Low
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000075573   ⟹   ENSRNOP00000067016
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl3163,262,985 - 163,267,640 (-)Ensembl
Rnor_6.0 Ensembl3172,567,732 - 172,574,333 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000103456   ⟹   ENSRNOP00000079822
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl3163,263,065 - 163,271,181 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000106024   ⟹   ENSRNOP00000086559
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl3163,262,985 - 163,268,286 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000107480   ⟹   ENSRNOP00000083616
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl3163,262,985 - 163,268,286 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000115092   ⟹   ENSRNOP00000083704
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl3163,262,985 - 163,271,041 (-)Ensembl
RefSeq Acc Id: NM_001009543   ⟹   NP_001009543
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.23163,263,059 - 163,271,055 (-)NCBI
Rnor_6.03172,567,092 - 172,574,382 (-)NCBI
Rnor_5.03178,613,098 - 178,620,388 (-)NCBI
Celera3162,436,443 - 162,444,456 (-)RGD
Sequence:
Protein Sequences
Protein RefSeqs NP_001009543 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAH60590 (Get FASTA)   NCBI Sequence Viewer  
  EDL85078 (Get FASTA)   NCBI Sequence Viewer  
  EDL85079 (Get FASTA)   NCBI Sequence Viewer  
  Q6P9U4 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: NP_001009543   ⟸   NM_001009543
- UniProtKB: Q6P9U4 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: ENSRNOP00000067016   ⟸   ENSRNOT00000075573
RefSeq Acc Id: ENSRNOP00000079822   ⟸   ENSRNOT00000103456
RefSeq Acc Id: ENSRNOP00000083616   ⟸   ENSRNOT00000107480
RefSeq Acc Id: ENSRNOP00000086559   ⟸   ENSRNOT00000106024
RefSeq Acc Id: ENSRNOP00000083704   ⟸   ENSRNOT00000115092
Protein Domains
PRELI/MSF1

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q6P9U4-F1-model_v2 AlphaFold Q6P9U4 1-195 view protein structure

Transcriptome

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

Promoters
RGD ID:13692723
Promoter ID:EPDNEW_R3248
Type:initiation region
Name:Prelid3b_1
Description:PRELI domain containing 3B
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_6.03172,574,382 - 172,574,442EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1594395 AgrOrtholog
BioCyc Gene G2FUF-46449 BioCyc
Ensembl Genes ENSRNOG00000046644 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000067016.3 UniProtKB/TrEMBL
  ENSRNOP00000079822.1 UniProtKB/TrEMBL
  ENSRNOP00000083616.1 UniProtKB/TrEMBL
  ENSRNOP00000083704 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSRNOP00000086559.1 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000075573.3 UniProtKB/TrEMBL
  ENSRNOT00000103456.1 UniProtKB/TrEMBL
  ENSRNOT00000106024.1 UniProtKB/TrEMBL
  ENSRNOT00000107480.1 UniProtKB/TrEMBL
  ENSRNOT00000115092 ENTREZGENE, UniProtKB/Swiss-Prot
IMAGE_CLONE IMAGE:6918453 IMAGE-MGC_LOAD
InterPro PRELI/MSF1_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Slowmo/Ups UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:494346 UniProtKB/Swiss-Prot
MGC_CLONE MGC:72955 IMAGE-MGC_LOAD
NCBI Gene 494346 ENTREZGENE
PANTHER PTHR11158 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam PRELI UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Prelid3b PhenoGen
PROSITE PRELI_MSF1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A0A8I5ZP64_RAT UniProtKB/TrEMBL
  A0A8I5ZW67_RAT UniProtKB/TrEMBL
  A0A8I6A2G4_RAT UniProtKB/TrEMBL
  M0RBS0_RAT UniProtKB/TrEMBL
  PLD3B_RAT UniProtKB/Swiss-Prot, ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2015-08-27 Prelid3b  PRELI domain containing 3B  Slmo2  slowmo homolog 2 (Drosophila)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-11-20 MGC72955  similar to RIKEN cDNA 2310042G06      Symbol and Name status set to provisional 70820 PROVISIONAL