Bpifb3 (BPI fold containing family B, member 3) - Rat Genome Database

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Gene: Bpifb3 (BPI fold containing family B, member 3) Rattus norvegicus
Analyze
Symbol: Bpifb3
Name: BPI fold containing family B, member 3
RGD ID: 1565613
Description: Predicted to enable lipid binding activity. Predicted to be located in cytoplasm. Orthologous to human BPIFB3 (BPI fold containing family B member 3); INTERACTS WITH 6-propyl-2-thiouracil; bisphenol A; aflatoxin B1 (ortholog).
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: antimicrobial peptide RYA3; BPI fold-containing family B member 3; ligand-binding protein RYA3; LOC499924; Long palate, lung and nasal epithelium carcinoma associated protein 3; long palate, lung and nasal epithelium carcinoma-associated protein 3; Lplunc3; Potential ligand-binding protein RYA3; Rya3
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
GRCr83162,861,234 - 162,875,850 (+)NCBIGRCr8
mRatBN7.23142,401,068 - 142,415,684 (+)NCBImRatBN7.2mRatBN7.2
UTH_Rnor_SHR_Utx3146,302,990 - 146,317,609 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.03154,886,817 - 154,901,436 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.03152,627,060 - 152,641,660 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.03149,401,890 - 149,416,506 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl3149,401,890 - 149,416,506 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.03155,779,667 - 155,794,283 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.43144,303,258 - 144,317,875 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera3141,142,203 - 141,156,819 (+)NCBICelera
Cytogenetic Map3q41NCBI
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

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. Novel genes for potential ligand-binding proteins in subregions of the olfactory mucosa. Dear TN, etal., EMBO J. 1991 Oct;10(10):2813-9.
2. GOA pipeline RGD automated data pipeline
3. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:12837268   PMID:14739326   PMID:21787333  


Genomics

Comparative Map Data
Bpifb3
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr83162,861,234 - 162,875,850 (+)NCBIGRCr8
mRatBN7.23142,401,068 - 142,415,684 (+)NCBImRatBN7.2mRatBN7.2
UTH_Rnor_SHR_Utx3146,302,990 - 146,317,609 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.03154,886,817 - 154,901,436 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.03152,627,060 - 152,641,660 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.03149,401,890 - 149,416,506 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl3149,401,890 - 149,416,506 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.03155,779,667 - 155,794,283 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.43144,303,258 - 144,317,875 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera3141,142,203 - 141,156,819 (+)NCBICelera
Cytogenetic Map3q41NCBI
BPIFB3
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh382033,053,903 - 33,073,847 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl2033,053,903 - 33,073,847 (+)EnsemblGRCh38hg38GRCh38
GRCh372031,641,709 - 31,661,653 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 362031,106,891 - 31,125,095 (+)NCBINCBI36Build 36hg18NCBI36
Celera2028,397,115 - 28,415,310 (+)NCBICelera
Cytogenetic Map20q11.21NCBI
HuRef2028,430,357 - 28,448,556 (+)NCBIHuRef
CHM1_12031,543,370 - 31,561,565 (+)NCBICHM1_1
T2T-CHM13v2.02034,780,603 - 34,800,582 (+)NCBIT2T-CHM13v2.0
Bpifb3
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm392153,760,118 - 153,774,916 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl2153,760,150 - 153,774,916 (+)EnsemblGRCm39 Ensembl
GRCm382153,918,198 - 153,932,996 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl2153,918,230 - 153,932,996 (+)EnsemblGRCm38mm10GRCm38
MGSCv372153,743,966 - 153,758,732 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv362153,609,671 - 153,624,437 (+)NCBIMGSCv36mm8
Celera2159,754,119 - 159,769,356 (+)NCBICelera
Cytogenetic Map2H1NCBI
cM Map275.99NCBI
Bpifb3
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495542228,192,605 - 28,207,500 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495542228,192,359 - 28,208,946 (-)NCBIChiLan1.0ChiLan1.0
BPIFB3
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v22138,744,629 - 38,763,203 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan12038,737,727 - 38,756,302 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v02029,339,270 - 29,359,959 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.12030,458,268 - 30,478,127 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl2030,458,268 - 30,478,127 (+)Ensemblpanpan1.1panPan2
BPIFB3
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12422,319,861 - 22,337,914 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2422,319,874 - 22,337,914 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2421,966,999 - 21,983,488 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.02423,007,124 - 23,023,599 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2423,007,124 - 23,023,632 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12422,282,712 - 22,299,196 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02422,392,648 - 22,409,110 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02422,823,769 - 22,840,253 (+)NCBIUU_Cfam_GSD_1.0
Bpifb3
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024408640171,312,622 - 171,326,953 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493648519,744,007 - 19,758,094 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_00493648519,744,010 - 19,758,300 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
BPIFB3
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1736,577,408 - 36,602,149 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11736,584,608 - 36,602,145 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21741,547,752 - 41,565,335 (-)NCBISscrofa10.2Sscrofa10.2susScr3
BPIFB3
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1237,421,378 - 37,442,007 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl237,423,532 - 37,441,765 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366605089,462,047 - 89,482,454 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Bpifb3
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046248426,229,521 - 6,244,101 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046248426,229,281 - 6,244,850 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Bpifb3
67 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:55
Count of miRNA genes:49
Interacting mature miRNAs:53
Transcripts:ENSRNOT00000055349
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
70216Cm14Cardiac mass QTL 142.1heart mass (VT:0007028)heart wet weight (CMO:0000069)331172320163586636Rat
2301970Bw81Body weight QTL 815.19body mass (VT:0001259)body weight (CMO:0000012)341874578155617519Rat
2301971Cm71Cardiac mass QTL 714.63heart left ventricle mass (VT:0007031)heart left ventricle weight (CMO:0000776)341874578155617519Rat
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
2292591Esta4Estrogen-induced thymic atrophy QTL 4thymus mass (VT:0004954)thymus wet weight (CMO:0000855)347233211147415807Rat
1581568Rf53Renal function QTL 53urine total protein amount (VT:0000032)urine protein excretion rate to body weight ratio (CMO:0001099)356395968161299569Rat
8662816Vetf4Vascular elastic tissue fragility QTL 44renal artery integrity trait (VT:0010642)number of ruptures of the internal elastic lamina of the renal arteries (CMO:0002563)359242096157323038Rat
1581546Pur13Proteinuria QTL 132.930.0335urine total protein amount (VT:0000032)urine protein excretion rate (CMO:0000759)378196190146592722Rat
631841Niddm39Non-insulin dependent diabetes mellitus QTL 393.36blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)394856903159898684Rat
2293087Iddm27Insulin dependent diabetes mellitus QTL 272.68blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)397551417147415807Rat
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
2302373Gluco39Glucose level QTL 395.01blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)398535386161695835Rat
619618Rf3Renal disease susceptibility QTL 36.50.001urine albumin amount (VT:0002871)urine albumin excretion rate to body weight ratio (CMO:0001270)3107693393152693393Rat
1578754Stresp16Stress response QTL 1640.001blood renin amount (VT:0003349)plasma renin activity level (CMO:0000116)3112681431157681431Rat
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
1300173Rf11Renal function QTL 113.38renal blood flow trait (VT:2000006)absolute change in renal blood flow rate (CMO:0001168)3121056165145956249Rat
1300159Kidm4Kidney mass QTL 43.83kidney mass (VT:0002707)right kidney wet weight to body weight ratio (CMO:0001953)3121056165157309487Rat
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
631673Iddm13Insulin dependent diabetes mellitus QTL 131.30.663blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)3130193298161695983Rat
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
5686842Rf59Renal function QTL 59urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)3140069424146976080Rat
1298068Bp167Blood pressure QTL 1670.004arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)3141074471169034231Rat
1331726Bp208Blood pressure QTL 2083.129arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)3141339013162184794Rat
61335Bp20Blood pressure QTL 203arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)3141339236155617360Rat


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

endocrine system hemolymphoid system nervous system reproductive system
High
Medium
Low
Below cutoff 2 2 2 10

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000055349   ⟹   ENSRNOP00000052216
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl3149,401,890 - 149,416,506 (+)Ensembl
RefSeq Acc Id: NM_001109208   ⟹   NP_001102678
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr83162,861,234 - 162,875,850 (+)NCBI
mRatBN7.23142,401,068 - 142,415,684 (+)NCBI
Rnor_6.03149,401,890 - 149,416,506 (+)NCBI
Rnor_5.03155,779,667 - 155,794,283 (+)NCBI
RGSC_v3.43144,303,258 - 144,317,875 (+)RGD
Celera3141,142,203 - 141,156,819 (+)RGD
Sequence:
RefSeq Acc Id: XM_006235352   ⟹   XP_006235414
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr83162,861,404 - 162,875,850 (+)NCBI
mRatBN7.23142,402,502 - 142,415,645 (+)NCBI
Rnor_6.03149,402,071 - 149,416,419 (+)NCBI
Rnor_5.03155,779,667 - 155,794,283 (+)NCBI
Sequence:
Protein Sequences
Protein RefSeqs NP_001102678 (Get FASTA)   NCBI Sequence Viewer  
  XP_006235414 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EDL85985 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00055036469
  ENSRNOP00060033197
  ENSRNOP00065035050
GenBank Protein Q05701 (Get FASTA)   NCBI Sequence Viewer  
Reference Protein Sequences
RefSeq Acc Id: NP_001102678   ⟸   NM_001109208
- Peptide Label: precursor
- UniProtKB: A6KHX0 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006235414   ⟸   XM_006235352
- Peptide Label: isoform X1
- UniProtKB: Q05701 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: ENSRNOP00000052216   ⟸   ENSRNOT00000055349
Protein Domains
Lipid-binding serum glycoprotein C-terminal   Lipid-binding serum glycoprotein N-terminal

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q05701-F1-model_v2 AlphaFold Q05701 1-473 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:1565613 AgrOrtholog
BioCyc Gene G2FUF-47200 BioCyc
Ensembl Genes ENSRNOG00000013398 Ensembl
  ENSRNOG00055025838 UniProtKB/Swiss-Prot
  ENSRNOG00060023262 UniProtKB/Swiss-Prot
  ENSRNOG00065024910 UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00055044563 UniProtKB/Swiss-Prot
  ENSRNOT00060040224 UniProtKB/Swiss-Prot
  ENSRNOT00065042814 UniProtKB/Swiss-Prot
InterPro Bactericidal_perm-incr_a/b_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Lipid-bd_serum_glycop_C UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Lipid-bd_serum_glycop_N UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:499924 UniProtKB/TrEMBL
NCBI Gene 499924 ENTREZGENE
PANTHER BPI FOLD-CONTAINING FAMILY B MEMBER 3 UniProtKB/TrEMBL
  BPI FOLD-CONTAINING FAMILY B MEMBER 4-RELATED UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PTHR46019:SF5 UniProtKB/Swiss-Prot
Pfam LBP_BPI_CETP UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  LBP_BPI_CETP_C UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Bpifb3 PhenoGen
RatGTEx ENSRNOG00000013398 RatGTEx
  ENSRNOG00055025838 RatGTEx
  ENSRNOG00060023262 RatGTEx
  ENSRNOG00065024910 RatGTEx
SMART BPI1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  BPI2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF55394 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A6KHX0 ENTREZGENE, UniProtKB/TrEMBL
  BPIB3_RAT UniProtKB/Swiss-Prot, ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2011-08-16 Bpifb3  BPI fold containing family B, member 3  Rya3  antimicrobial peptide RYA3  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2011-08-01 Bpifb3  BPI fold containing family B, member 3  Rya3  antimicrobial peptide RYA3  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2011-08-01 Rya3  antimicrobial peptide RYA3  Bpifb3  BPI fold containing family B, member 3  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-03-05 Rya3  antimicrobial peptide RYA3  LOC499924  Long palate, lung and nasal epithelium carcinoma associated protein 3  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-02-09 LOC499924  Long palate, lung and nasal epithelium carcinoma associated protein 3      Symbol and Name status set to provisional 70820 PROVISIONAL