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 Genes
More Info homologs ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 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


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. 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
Additional References at PubMed
PMID:14739326   PMID:17984628   PMID:21787333  


Genomics

Variants

.
Variants in Bpifa2f
1 total Variants
miRNA Target Status

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.


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 exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system reproductive system respiratory system appendage
High
Medium
Low 2 2 2 10
Below cutoff 6 1 5 1 1 1 3 3 1 1

Sequence


Reference Sequences
RefSeq 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 Sequences
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
Reference Protein Sequences
RefSeq Acc Id: NP_542953   ⟸   NM_080775
- Peptide Label: precursor
- UniProtKB: Q63550 (UniProtKB/TrEMBL),   F7FD74 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000052212   ⟸   ENSRNOT00000055345
Protein Domains
Lipid-binding serum glycoprotein N-terminal

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q63550-F1-model_v2 AlphaFold Q63550 1-206 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:3725 AgrOrtholog
BioCyc Gene G2FUF-47194 BioCyc
Ensembl Genes ENSRNOG00000036870 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000055345 ENTREZGENE
  ENSRNOT00000055345.3 UniProtKB/TrEMBL
InterPro Bactericidal_perm-incr_a/b_dom 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


Nomenclature History
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

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