Bpifa1 (BPI fold containing family A, member 1) - Rat Genome Database

Send us a Message



Submit Data |  Help |  Video Tutorials |  News |  Publications |  Download |  REST API |  Citing RGD |  Contact   
Gene: Bpifa1 (BPI fold containing family A, member 1) Rattus norvegicus
Analyze
Symbol: Bpifa1
Name: BPI fold containing family A, member 1
RGD ID: 619818
Description: Predicted to enable lipid binding activity. Predicted to be involved in several processes, including defense response to symbiont; multicellular organismal-level water homeostasis; and negative regulation of single-species biofilm formation in or on host organism. Located in microvillus. Orthologous to human BPIFA1 (BPI fold containing family A member 1); INTERACTS WITH 6-propyl-2-thiouracil; ammonium chloride; bisphenol A.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: BPI fold-containing family A member 1; ES cell-related protein; palate lung and nasal epithelium carcinoma associated; palate lung and nasal epithelium clone protein; palate lung and nasal epithelium expressed transcript; palate, lung and nasal epithelium associated; palate, lung, and nasal epithelium associated; palate, lung, and nasal epithelium carcinoma associated; palate, lung, and nasal epithelium expressed transcript; Plunc
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr83163,087,965 - 163,093,708 (+)NCBIGRCr8
mRatBN7.23142,627,810 - 142,633,553 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl3142,627,810 - 142,633,552 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx3146,529,706 - 146,535,449 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.03155,113,544 - 155,119,287 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.03152,853,782 - 152,859,525 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.03149,624,867 - 149,630,610 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl3149,624,712 - 149,630,613 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.03156,002,440 - 156,008,183 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.43144,529,855 - 144,535,598 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.13144,435,476 - 144,441,219 (+)NCBI
Celera3141,369,225 - 141,374,968 (+)NCBICelera
Cytogenetic Map3q41NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

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. Rat ISS GO annotations from GOA human gene data--August 2006 GOA data from the GO Consortium
3. Electronic Transfer of LocusLink and RefSeq Data NCBI rat LocusLink and RefSeq merged data July 26, 2002
4. GOA pipeline RGD automated data pipeline
5. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
6. Plunc, a member of the secretory gland protein family, is up-regulated in nasal respiratory epithelium after olfactory bulbectomy. Sung YK, etal., J Biol Chem 2002 Apr 12;277(15):12762-9.
Additional References at PubMed
PMID:11425234   PMID:14739326   PMID:21787333   PMID:21805676   PMID:23499554   PMID:24124190  


Genomics

Comparative Map Data
Bpifa1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr83163,087,965 - 163,093,708 (+)NCBIGRCr8
mRatBN7.23142,627,810 - 142,633,553 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl3142,627,810 - 142,633,552 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx3146,529,706 - 146,535,449 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.03155,113,544 - 155,119,287 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.03152,853,782 - 152,859,525 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.03149,624,867 - 149,630,610 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl3149,624,712 - 149,630,613 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.03156,002,440 - 156,008,183 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.43144,529,855 - 144,535,598 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.13144,435,476 - 144,441,219 (+)NCBI
Celera3141,369,225 - 141,374,968 (+)NCBICelera
Cytogenetic Map3q41NCBI
BPIFA1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh382033,235,996 - 33,243,306 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl2033,235,995 - 33,243,311 (+)EnsemblGRCh38hg38GRCh38
GRCh372031,823,802 - 31,831,112 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 362031,287,463 - 31,294,773 (+)NCBINCBI36Build 36hg18NCBI36
Build 342031,287,462 - 31,294,772NCBI
Celera2028,577,699 - 28,585,012 (+)NCBICelera
Cytogenetic Map20q11.21NCBI
HuRef2028,611,406 - 28,618,725 (+)NCBIHuRef
CHM1_12031,724,914 - 31,732,227 (+)NCBICHM1_1
T2T-CHM13v2.02034,963,235 - 34,970,520 (+)NCBIT2T-CHM13v2.0
Bpifa1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm392153,984,800 - 153,991,137 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl2153,984,800 - 153,991,139 (+)EnsemblGRCm39 Ensembl
GRCm382154,142,880 - 154,149,217 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl2154,142,880 - 154,149,219 (+)EnsemblGRCm38mm10GRCm38
MGSCv372153,968,616 - 153,974,953 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv362153,834,326 - 153,840,658 (+)NCBIMGSCv36mm8
Celera2160,065,103 - 160,071,425 (+)NCBICelera
Cytogenetic Map2H1NCBI
cM Map276.15NCBI
Bpifa1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0NW_00495542228,063,077 - 28,069,939 (-)NCBIChiLan1.0ChiLan1.0
BPIFA1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v22138,929,074 - 38,936,568 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan12038,922,172 - 38,929,666 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v02029,524,619 - 29,532,996 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.12030,641,138 - 30,649,515 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl2030,642,191 - 30,649,515 (+)Ensemblpanpan1.1panPan2
BPIFA1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12422,475,407 - 22,482,666 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2422,457,631 - 22,482,661 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2422,121,008 - 22,128,270 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.02423,161,382 - 23,168,638 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2423,160,932 - 23,168,633 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12422,436,703 - 22,443,958 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02422,546,960 - 22,554,221 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02422,978,118 - 22,985,370 (+)NCBIUU_Cfam_GSD_1.0
BPIFA1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1736,754,498 - 36,761,621 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11736,754,498 - 36,761,622 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21741,704,827 - 41,711,955 (+)NCBISscrofa10.2Sscrofa10.2susScr3
BPIFA1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1237,571,577 - 37,579,529 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl237,573,837 - 37,578,667 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366605089,321,049 - 89,329,502 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Bpifa1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046248426,024,460 - 6,031,718 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Bpifa1
2 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:41
Count of miRNA genes:36
Interacting mature miRNAs:39
Transcripts:ENSRNOT00000018581
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 (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
2312673Scl63Serum cholesterol level QTL 630.001blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)398535255168026850Rat
1598877Bp285Blood pressure QTL 2851.50.03arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)3120538241165538241Rat
1578653Vnigr3Vascular neointimal growth QTL 33.1artery morphology trait (VT:0002191)artery neointimal hyperplastic lesion area (CMO:0001414)3130656562169034231Rat
2302373Gluco39Glucose level QTL 395.01blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)398535386161695835Rat
1298068Bp167Blood pressure QTL 1670.004arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)3141074471169034231Rat
70216Cm14Cardiac mass QTL 142.1heart mass (VT:0007028)heart wet weight (CMO:0000069)331172320163586636Rat
2292591Esta4Estrogen-induced thymic atrophy QTL 4thymus mass (VT:0004954)thymus wet weight (CMO:0000855)347233211147415807Rat
2298477Eau4Experimental allergic uveoretinitis QTL 40.0011uvea integrity trait (VT:0010551)experimental autoimmune uveitis score (CMO:0001504)3137398739169034231Rat
61335Bp20Blood pressure QTL 203arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)3141339236155617360Rat
1581568Rf53Renal function QTL 53urine total protein amount (VT:0000032)urine protein excretion rate to body weight ratio (CMO:0001099)356395968161299569Rat
1578754Stresp16Stress response QTL 1640.001blood renin amount (VT:0003349)plasma renin activity level (CMO:0000116)3112681431157681431Rat
1331726Bp208Blood pressure QTL 2083.129arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)3141339013162184794Rat
1300173Rf11Renal function QTL 113.38renal blood flow trait (VT:2000006)absolute change in renal blood flow rate (CMO:0001168)3121056165145956249Rat
9589106Insul23Insulin level QTL 2313.860.001blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)3131635904169034231Rat
10755461Coatc16Coat color QTL 16coat/hair pigmentation trait (VT:0010463)pigmented ventral coat/hair area to total ventral coat/hair area ratio (CMO:0001812)3122438700167438700Rat
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
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
2303620Vencon4Ventilatory control QTL 43.9respiration trait (VT:0001943)tidal volume (CMO:0000222)3127162703168026850Rat
631841Niddm39Non-insulin dependent diabetes mellitus QTL 393.36blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)394856903159898684Rat
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
619618Rf3Renal disease susceptibility QTL 36.50.001urine albumin amount (VT:0002871)urine albumin excretion rate to body weight ratio (CMO:0001270)3107693393152693393Rat
1300159Kidm4Kidney mass QTL 43.83kidney mass (VT:0002707)right kidney wet weight to body weight ratio (CMO:0001953)3121056165157309487Rat
5686842Rf59Renal function QTL 59urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)3140069424146976080Rat
2301971Cm71Cardiac mass QTL 714.63heart left ventricle mass (VT:0007031)heart left ventricle weight (CMO:0000776)341874578155617519Rat
2312659Slep7Serum leptin concentration QTL 70.001blood leptin amount (VT:0005667)serum leptin level (CMO:0000780)398535255168026850Rat
631673Iddm13Insulin dependent diabetes mellitus QTL 131.30.663blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)3130193298161695983Rat
2301970Bw81Body weight QTL 815.19body mass (VT:0001259)body weight (CMO:0000012)341874578155617519Rat
1581546Pur13Proteinuria QTL 132.930.0335urine total protein amount (VT:0000032)urine protein excretion rate (CMO:0000759)378196190146592722Rat
1578656Vnigr2Vascular neointimal growth QTL 24.2artery morphology trait (VT:0002191)lesioned artery residual lumen area (CMO:0001417)3130656562169034231Rat
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
631541Bp81Blood pressure QTL 814arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)3124122556169034231Rat
2293087Iddm27Insulin dependent diabetes mellitus QTL 272.68blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)397551417147415807Rat
2312670Bw94Body weight QTL 940.01inguinal fat pad mass (VT:0010424)inguinal fat pad weight to body weight ratio (CMO:0001253)398535255168026850Rat


Expression

RNA-SEQ Expression

alimentary part of gastrointestinal system
appendage
circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
integumental system
mesenchyme
mesoderm
nervous system
renal system
reproductive system
respiratory system
1 9 11 70 35 38 8 15 8 1 62 37 60 8 36 30

Sequence


Ensembl Acc Id: ENSRNOT00000018581   ⟹   ENSRNOP00000018581
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl3142,627,810 - 142,633,552 (+)Ensembl
Rnor_6.0 Ensembl3149,624,712 - 149,630,613 (+)Ensembl
RefSeq Acc Id: NM_172031   ⟹   NP_742028
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr83163,087,965 - 163,093,708 (+)NCBI
mRatBN7.23142,627,810 - 142,633,553 (+)NCBI
Rnor_6.03149,624,867 - 149,630,610 (+)NCBI
Rnor_5.03156,002,440 - 156,008,183 (+)NCBI
RGSC_v3.43144,529,855 - 144,535,598 (+)RGD
Celera3141,369,225 - 141,374,968 (+)RGD
Sequence:
RefSeq Acc Id: XM_039104251   ⟹   XP_038960179
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr83163,088,002 - 163,093,708 (+)NCBI
mRatBN7.23142,627,895 - 142,633,553 (+)NCBI
Protein Sequences
Protein RefSeqs NP_742028 (Get FASTA)   NCBI Sequence Viewer  
  XP_038960179 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAM73687 (Get FASTA)   NCBI Sequence Viewer  
  EDL85979 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000018581.3
GenBank Protein Q8K4I4 (Get FASTA)   NCBI Sequence Viewer  
RefSeq Acc Id: NP_742028   ⟸   NM_172031
- Peptide Label: precursor
- UniProtKB: Q8K4I4 (UniProtKB/Swiss-Prot),   A6KHX6 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000018581   ⟸   ENSRNOT00000018581
RefSeq Acc Id: XP_038960179   ⟸   XM_039104251
- Peptide Label: isoform X1
Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q8K4I4-F1-model_v2 AlphaFold Q8K4I4 1-270 view protein structure

Transcriptome

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

Promoters
RGD ID:13692568
Promoter ID:EPDNEW_R3093
Type:single initiation site
Name:Bpifa1_1
Description:BPI fold containing family A, member 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_6.03149,624,851 - 149,624,911EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:619818 AgrOrtholog
BioCyc Gene G2FUF-47189 BioCyc
Ensembl Genes ENSRNOG00000013859 Ensembl, UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000018581.5 UniProtKB/Swiss-Prot
Gene3D-CATH Bactericidal permeability-increasing protein, domain 1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
InterPro Bactericidal_perm-incr_a/b_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  BPI_fold-superfamily_member UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Lipid-bd_serum_glycop_N UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:246238 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
NCBI Gene 246238 ENTREZGENE
PANTHER BPI FOLD-CONTAINING FAMILY A MEMBER 1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  BPI FOLD-CONTAINING FAMILY A MEMBER 1 UniProtKB/TrEMBL, UniProtKB/Swiss-Prot
Pfam LBP_BPI_CETP UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Bpifa1 PhenoGen
RatGTEx ENSRNOG00000013859 RatGTEx
  ENSRNOG00055025991 RatGTEx
  ENSRNOG00060023651 RatGTEx
  ENSRNOG00065025036 RatGTEx
Superfamily-SCOP Bactericidal permeability-increasing protein, BPI UniProtKB/TrEMBL, UniProtKB/Swiss-Prot
UniProt A6KHX6 ENTREZGENE, UniProtKB/TrEMBL
  BPIA1_RAT UniProtKB/Swiss-Prot, ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2011-08-16 Bpifa1  BPI fold containing family A, member 1  Plunc  palate, lung and nasal epithelium associated  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2011-08-01 Plunc  palate, lung and nasal epithelium associated  Bpifa1  BPI fold containing family A, member 1  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-03-11 Plunc  palate, lung, and nasal epithelium associated  Plunc  palate, lung, and nasal epithelium carcinoma associated  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2004-12-14 Plunc  palate, lung, and nasal epithelium carcinoma associated    palate, lung, and nasal epithelium expressed transcript  Name updated 1299863 APPROVED
2002-08-07 Plunc  palate, lung, and nasal epithelium expressed transcript      Symbol and Name status set to provisional 70820 PROVISIONAL