Bpifa2f (BPI fold containing family A, member 2F) - Rat Genome Database

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Gene: Bpifa2f (BPI fold containing family A, member 2F) Rattus norvegicus
Analyze
No known orthologs.
Symbol: Bpifa2f
Name: BPI fold containing family A, member 2F
RGD ID: 3725
Description: Predicted to enable lipopolysaccharide binding activity. Predicted to be located in extracellular region. Predicted to be active in secretory granule. Orthologous to human BPIFA2 (BPI fold containing family A member 2); INTERACTS WITH 3-chloropropane-1,2-diol; acrylamide; ammonium chloride.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: neonatal submandibular gland protein B; Smgb
RGD Orthologs
Alliance Orthologs
More Info homologs ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr83162,981,414 - 162,993,621 (+)NCBIGRCr8
mRatBN7.23142,521,255 - 142,533,462 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl3142,524,881 - 142,533,462 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx3146,423,162 - 146,435,369 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.03155,006,996 - 155,019,203 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.03152,747,244 - 152,759,451 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.03149,521,040 - 149,533,252 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl3149,524,667 - 149,533,248 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.03155,898,515 - 155,910,723 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.43144,423,417 - 144,435,625 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.13144,332,669 - 144,341,247 (+)NCBI
Celera3141,262,623 - 141,274,766 (+)NCBICelera
Cytogenetic Map3q41NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model



  
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Bpifa2fRat3-chloropropane-1,2-diol decreases expressionEXP 6480464alpha-Chlorohydrin results in decreased expression of BPIFA2F mRNACTDPMID:20409345
Bpifa2fRatacrylamide increases expressionEXP 6480464Acrylamide results in increased expression of BPIFA2F mRNACTDPMID:28959563
Bpifa2fRatammonium chloride affects expressionEXP 6480464Ammonium Chloride affects the expression of BPIFA2F mRNACTDPMID:16483693
Bpifa2fRatcopper atom increases expressionEXP 6480464Copper deficiency results in increased expression of BPIFA2F mRNACTDPMID:26033743
Bpifa2fRatcopper(0) increases expressionEXP 6480464Copper deficiency results in increased expression of BPIFA2F mRNACTDPMID:26033743
Bpifa2fRatdecabromodiphenyl ether increases expressionEXP 6480464decabromobiphenyl ether results in increased expression of BPIFA2F mRNACTDPMID:23640034
Bpifa2fRatflavonoids decreases expressionEXP 6480464Flavonoids results in decreased expression of BPIFA2F mRNACTDPMID:18035473


Cellular Component

  
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Bpifa2fRatextracellular region located_inIEAUniProtKB-SubCell:SL-02431600115GO_REF:0000044UniProtGO_REF:0000044
Bpifa2fRatextracellular region located_inIEAUniProtKB-KW:KW-09641600115GO_REF:0000043UniProtGO_REF:0000043
Bpifa2fRatsecretory granule is_active_inIBAPANTHER:PTN000053110 and Bpifa2 (Rattus norvegicus)1600115GO_REF:0000033GO_CentralGO_REF:0000033

Molecular Function

  
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Bpifa2fRatlipid binding enablesIEAInterPro:IPR017942 and InterPro:IPR0179431600115GO_REF:0000002InterProGO_REF:0000002
Bpifa2fRatlipopolysaccharide binding enablesIBAPANTHER:PTN000053110 and UniProtKB:Q96DR51600115GO_REF:0000033GO_CentralGO_REF:0000033


#
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. Structure and chromosomal localization of the rat salivary Psp and Smgb genes. Gupta N, etal., Gene 2000 Feb 8;243(1-2):11-8.
3. Neonatal rat submandibular gland protein SMG-A and parotid secretory protein are alternatively regulated members of a salivary protein multigene family. Mirels L and Ball WD, J Biol Chem 1992 Feb 5;267(4):2679-87.
4. Characterization of the rat salivary-gland B1-immunoreactive proteins. Mirels L, etal., Biochem J 1998 Feb 15;330 ( Pt 1):437-44.
5. Electronic Transfer of LocusLink and RefSeq Data NCBI rat LocusLink and RefSeq merged data July 26, 2002
6. GOA pipeline RGD automated data pipeline
7. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
PMID:14739326   PMID:17984628   PMID:21787333  



.

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Variants in Bpifa2f
1 total Variants


Assembly: Rnor_5.0
Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain Variant Page
3 155904379 155904380 C G snv NIG-III/Hok (KyushuU) View more Information

Predicted Target Of
Summary Value
Count of predictions:25
Count of miRNA genes:23
Interacting mature miRNAs:25
Transcripts:ENSRNOT00000055345
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.


1 to 10 of 33 rows
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD ID
Symbol
Name
LOD
P Value
Trait
Sub Trait
Chr
Start
Stop
Species
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

1 to 10 of 33 rows



appendage
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
integumental system
mesenchyme
mesoderm
nervous system
renal system
reproductive system
respiratory system
1 7 16 30 4 11 4 1 19 13 4 1 16 26



Ensembl Acc Id: ENSRNOT00000055345   ⟹   ENSRNOP00000052212
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl3142,524,881 - 142,533,462 (+)Ensembl
Rnor_6.0 Ensembl3149,524,667 - 149,533,248 (+)Ensembl
RefSeq Acc Id: NM_080775   ⟹   NP_542953
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr83162,981,414 - 162,993,621 (+)NCBI
mRatBN7.23142,521,255 - 142,533,462 (+)NCBI
Rnor_6.03149,521,040 - 149,533,248 (+)NCBI
Rnor_5.03155,898,515 - 155,910,723 (+)NCBI
RGSC_v3.43144,423,417 - 144,435,625 (+)RGD
Celera3141,262,623 - 141,274,766 (+)RGD
Sequence:
Protein RefSeqs NP_542953 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAC12783 (Get FASTA)   NCBI Sequence Viewer  
  EDL85981 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000052212
  ENSRNOP00000052212.1
RefSeq Acc Id: NP_542953   ⟸   NM_080775
- Peptide Label: precursor
- UniProtKB: Q63550 (UniProtKB/TrEMBL),   F7FD74 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000052212   ⟸   ENSRNOT00000055345
Lipid-binding serum glycoprotein N-terminal

Name Modeler Protein Id AA Range Protein Structure
AF-Q63550-F1-model_v2 AlphaFold Q63550 1-206 view protein structure


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



1 to 18 of 18 rows
Database
Acc Id
Source(s)
BioCyc Gene G2FUF-47194 BioCyc
Ensembl Genes ENSRNOG00000036870 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000055345 ENTREZGENE
  ENSRNOT00000055345.3 UniProtKB/TrEMBL
Gene3D-CATH Bactericidal permeability-increasing protein, domain 1 UniProtKB/TrEMBL
InterPro Bactericidal_perm-incr_a/b_dom UniProtKB/TrEMBL
  BPI_fold-antibacterial UniProtKB/TrEMBL
  Lipid-bd_serum_glycop_N UniProtKB/TrEMBL
KEGG Report rno:54303 UniProtKB/TrEMBL
NCBI Gene 54303 ENTREZGENE
PANTHER BPI FOLD-CONTAINING FAMILY A MEMBER 2 UniProtKB/TrEMBL
  BPI FOLD-CONTAINING FAMILY A MEMBER 2 UniProtKB/TrEMBL
Pfam LBP_BPI_CETP UniProtKB/TrEMBL
PhenoGen Bpifa2f PhenoGen
RatGTEx ENSRNOG00000036870 RatGTEx
Superfamily-SCOP Bactericidal_perm-incr_a/b_dom UniProtKB/TrEMBL
UniProt F7FD74 ENTREZGENE, UniProtKB/TrEMBL
  Q63550 ENTREZGENE, UniProtKB/TrEMBL
1 to 18 of 18 rows


Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2011-08-01 Bpifa2f  BPI fold containing family A, member 2F  Smgb  neonatal submandibular gland protein B  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2002-06-10 Smgb  Neonatal submandibular gland protein B      Symbol and Name status set to approved 70586 APPROVED

Note Type Note Reference
gene_expression expressed in the immature acinar cells neonatalrat parotid and submandibular glands 634215
gene_transcript has nine exons 634215