Sbp (spermine binding protein) - Rat Genome Database

Send us a Message
Submit Data |  Help |  Video Tutorials |  News |  Publications |  Download |  REST API |  Citing RGD |  Contact   
Search RGD Grant Resources Citing RGD About Us Contact Us
Genes Variants Community Projects QTLs Strains Markers Genome Information Ontologies Cell Lines References Download Submit Data
OntoMate (Literature Search) JBrowse (Genome Browser) Synteny Browser (VCMap) Variant Visualizer Multi-Ontology Enrichment (MOET) Gene-Ortholog Location Finder (GOLF) InterViewer (Protein-Protein Interactions) PhenoMiner (Quatitative Phenotypes) Gene Annotator OLGA (Gene List Generator) AllianceMine GViewer (Genome Viewer)
Aging & Age-Related Disease Behavioral & Substance Use Disorder Cancer & Neoplastic Disease Cardiovascular Disease Coronavirus Disease Developmental Disease Diabetes Hematologic Disease Immune & Inflammatory Disease Infectious Disease Liver Disease Neurological Disease Obesity & Metabolic Syndrome Renal Disease Respiratory Disease Sensory Organ Disease
Find Models Genetic Models Autism Models Rat PhenoMiner (Quantitative Phenotypes) Chinchilla PhenoMiner Expected Ranges (Quantitative Phenotype) PhenoMiner Term Comparison Hybrid Rat Diversity Panel Phenotypes Phenotypes in Other Animal Models Animal Husbandry Strain Medical Records Phylogenetics Strain Availability Calendar Rats 101 Submissions Photo Archive
Pathways
Rat Community Forum Directory of Rat Laboratories Video Tutorials News RGD Publications RGD Presentations Archive Nomenclature Guidelines Resource Links Laboratory Resources Employment Resources
Advanced Search (OLGA)
Gene: Sbp (spermine binding protein) Rattus norvegicus
Analyze
Symbol: Sbp
Name: spermine binding protein
RGD ID: 3623
Description: Predicted to enable polyamine binding activity. Predicted to be active in extracellular space. Orthologous to human ZG16B (zymogen granule protein 16B); INTERACTS WITH 1,3,5-trinitro-1,3,5-triazinane; ammonium chloride; bisphenol A.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: prostatic spermine-binding protein; Zg16b; zymogen granule protein 16B
RGD Orthologs
Mouse
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81013,450,613 - 13,473,016 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1013,469,303 - 13,473,016 (+)EnsemblGRCr8
mRatBN7.21012,946,036 - 12,968,439 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1012,946,036 - 12,968,439 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx1017,690,923 - 17,713,362 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01017,179,709 - 17,202,148 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01012,678,789 - 12,701,174 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.01013,289,502 - 13,309,338 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1013,289,508 - 13,309,332 (+)Ensemblrn6Rnor6.0
Rnor_5.01013,121,713 - 13,125,338 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.41013,183,508 - 13,186,889 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1012,639,944 - 12,654,887 (+)NCBICelera
RGSC_v3.11013,183,519 - 13,186,889 (+)NCBI
Cytogenetic Map10q12NCBI
JBrowse:




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. Prostatic spermine-binding protein. Cloning and nucleotide sequence of cDNA, amino acid sequence, and androgenic control of mRNA level. Chang CS, etal., J Biol Chem 1987 Feb 25;262(6):2826-31.
2. 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.
3. Electronic Transfer of LocusLink and RefSeq Data NCBI rat LocusLink and RefSeq merged data July 26, 2002
4. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
5. Tentative Sequence Identification Numbers Tentative Sequence Data IDs. TIGR Gene Index, Rat Data
Additional References at PubMed
PMID:3166977  


Genomics

Comparative Map Data
Sbp
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81013,450,613 - 13,473,016 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1013,469,303 - 13,473,016 (+)EnsemblGRCr8
mRatBN7.21012,946,036 - 12,968,439 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1012,946,036 - 12,968,439 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx1017,690,923 - 17,713,362 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01017,179,709 - 17,202,148 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01012,678,789 - 12,701,174 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.01013,289,502 - 13,309,338 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1013,289,508 - 13,309,332 (+)Ensemblrn6Rnor6.0
Rnor_5.01013,121,713 - 13,125,338 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.41013,183,508 - 13,186,889 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1012,639,944 - 12,654,887 (+)NCBICelera
RGSC_v3.11013,183,519 - 13,186,889 (+)NCBI
Cytogenetic Map10q12NCBI
Sbp
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391724,141,525 - 24,164,577 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1724,160,646 - 24,164,581 (+)EnsemblGRCm39 EnsemblGRCm39
GRCm381723,922,551 - 23,945,603 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1723,941,672 - 23,945,607 (+)Ensemblmm10GRCm38
MGSCv371724,078,963 - 24,082,574 (+)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv361723,669,618 - 23,673,226 (+)NCBIMGSCv36mm8
Celera1724,451,207 - 24,454,991 (+)NCBICelera
Cytogenetic Map17A3.3NCBI
cM Map1712.15NCBI

Variants

.
Variants in Sbp
105 total Variants

QTLs in Region (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
2313095Bss62Bone structure and strength QTL 621.50.0001tibia size trait (VT:0100001)tibia midshaft cross-sectional area (CMO:0001717)10589381150893811Rat
631660Hcar1Hepatocarcinoma resistance QTL 13.40.0001liver integrity trait (VT:0010547)volume of individual liver tumorous lesion (CMO:0001078)10666111835509383Rat
8662860Vetf10Vascular elastic tissue fragility QTL 10artery integrity trait (VT:0010639)number of ruptures of the internal elastic lamina of the abdominal aorta and iliac arteries (CMO:0002562)10666092373950353Rat
2313066Bss63Bone structure and strength QTL 631.40.0001tibia strength trait (VT:1000284)bone polar moment of inertia (CMO:0001558)10589381150893811Rat
631554Bp133Blood pressure QTL 1330.005arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)10125055464349221Rat
2313064Bmd71Bone mineral density QTL 710.90.0001tibia mineral mass (VT:1000283)compact volumetric bone mineral density (CMO:0001730)10589381150893811Rat
1578761Stresp21Stress response QTL 213.3thymus mass (VT:0004954)thymus wet weight (CMO:0000855)10687714251877142Rat
2293680Bss40Bone structure and strength QTL 405.660.0001femur strength trait (VT:0010010)femur total energy absorbed before break (CMO:0001677)10135730538Rat
7387235Uae41Urinary albumin excretion QTL 415.260.1874urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)10130004247Rat
2313104Bss61Bone structure and strength QTL 610.90.0001tibia area (VT:1000281)tibia midshaft cross-sectional area (CMO:0001717)10589381150893811Rat
61427Cia16Collagen induced arthritis QTL 163.2joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)10686461896620484Rat
10401803Kidm50Kidney mass QTL 50kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)1092219745922197Rat
2317754Glom25Glomerulus QTL 253.5urine protein amount (VT:0005160)urine protein level (CMO:0000591)10210370847103708Rat
2313081Bss64Bone structure and strength QTL 641.30.0001tibia strength trait (VT:1000284)tibia total energy absorbed before break (CMO:0001736)10589381150893811Rat
631828Alc5Alcohol consumption QTL 52.4consumption behavior trait (VT:0002069)ethanol drink intake rate (CMO:0001407)10117749933Rat
634327Hc4Hypercalciuria QTL 42.4urine calcium amount (VT:0002985)urine calcium excretion rate (CMO:0000763)10138832698Rat


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
musculoskeletal system
nervous system
renal system
reproductive system
respiratory system
2 1 4 6 9 10 3 4 3 1 25 11 1 3 9 42 7

Sequence


Ensembl Acc Id: ENSRNOT00000083075   ⟹   ENSRNOP00000071728
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1013,469,303 - 13,473,016 (+)Ensembl
mRatBN7.2 Ensembl1012,964,680 - 12,968,439 (+)Ensembl
Rnor_6.0 Ensembl1013,305,578 - 13,309,332 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000085694   ⟹   ENSRNOP00000072992
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1012,946,036 - 12,968,439 (+)Ensembl
Rnor_6.0 Ensembl1013,289,508 - 13,309,329 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000089902   ⟹   ENSRNOP00000068850
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1013,306,169 - 13,309,176 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000156904   ⟹   ENSRNOP00000099029
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1013,469,303 - 13,472,855 (+)Ensembl
RefSeq Acc Id: NM_001309360   ⟹   NP_001296289
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81013,450,613 - 13,473,016 (+)NCBI
mRatBN7.21012,946,036 - 12,968,439 (+)NCBI
Rnor_6.01013,289,502 - 13,309,337 (+)NCBI
Celera1012,639,944 - 12,654,887 (+)NCBI
Sequence:
RefSeq Acc Id: NM_001399302   ⟹   NP_001386231
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81013,469,767 - 13,473,016 (+)NCBI
mRatBN7.21012,965,190 - 12,968,439 (+)NCBI
RefSeq Acc Id: NM_013024   ⟹   NP_037156
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81013,469,303 - 13,473,016 (+)NCBI
mRatBN7.21012,964,726 - 12,968,439 (+)NCBI
Rnor_6.01013,305,578 - 13,309,337 (+)NCBI
Rnor_5.01013,121,713 - 13,125,338 (+)NCBI
RGSC_v3.41013,183,508 - 13,186,889 (+)RGD
Celera1012,651,128 - 12,654,887 (+)NCBI
Sequence:
Protein Sequences
Protein RefSeqs NP_001296289 (Get FASTA)   NCBI Sequence Viewer  
  NP_001386231 (Get FASTA)   NCBI Sequence Viewer  
  NP_037156 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAA42113 (Get FASTA)   NCBI Sequence Viewer  
  EDM03794 (Get FASTA)   NCBI Sequence Viewer  
  EDM03795 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000071728
GenBank Protein P08723 (Get FASTA)   NCBI Sequence Viewer  
RefSeq Acc Id: NP_037156   ⟸   NM_013024
- Peptide Label: isoform 1 precursor
- UniProtKB: A0A0G2K176 (UniProtKB/TrEMBL),   A6HCP0 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: NP_001296289   ⟸   NM_001309360
- Peptide Label: isoform 2
- UniProtKB: A0A0G2K4C9 (UniProtKB/TrEMBL),   A6HCN9 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000071728   ⟸   ENSRNOT00000083075
Ensembl Acc Id: ENSRNOP00000072992   ⟸   ENSRNOT00000085694
Ensembl Acc Id: ENSRNOP00000068850   ⟸   ENSRNOT00000089902
RefSeq Acc Id: NP_001386231   ⟸   NM_001399302
- Peptide Label: isoform 1 precursor
- UniProtKB: A0A0G2K176 (UniProtKB/TrEMBL),   A6HCP0 (UniProtKB/TrEMBL)
Ensembl Acc Id: ENSRNOP00000099029   ⟸   ENSRNOT00000156904
Protein Domains
Jacalin-type lectin

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-P08723-F1-model_v2 AlphaFold P08723 1-279 view protein structure

Transcriptome

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

Promoters
RGD ID:13697008
Promoter ID:EPDNEW_R7524
Type:multiple initiation site
Name:Sbp_1
Description:spermine binding protein
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_6.01013,306,089 - 13,306,149EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:3623 AgrOrtholog
BioCyc Gene G2FUF-25891 BioCyc
Ensembl Genes ENSRNOG00000058058 Ensembl, ENTREZGENE
Ensembl Transcript ENSRNOT00000083075 ENTREZGENE
Gene3D-CATH 2.100.10.30 UniProtKB/Swiss-Prot
InterPro Jacalin-like_lectin_dom UniProtKB/Swiss-Prot
  Jacalin-like_lectin_dom_sf UniProtKB/Swiss-Prot
  PolyBind_ProtTraffic UniProtKB/Swiss-Prot
NCBI Gene 25540 ENTREZGENE
PANTHER OS11G0524900 PROTEIN UniProtKB/Swiss-Prot
  ZYMOGEN GRANULE PROTEIN 16 HOMOLOG B UniProtKB/Swiss-Prot
Pfam Jacalin UniProtKB/Swiss-Prot
PhenoGen Sbp PhenoGen
PROSITE JACALIN_LECTIN UniProtKB/Swiss-Prot
RatGTEx ENSRNOG00000058058 RatGTEx
SMART Jacalin UniProtKB/Swiss-Prot
Superfamily-SCOP SSF51101 UniProtKB/Swiss-Prot
TIGR TC205173
UniProt A0A0G2K176 ENTREZGENE, UniProtKB/TrEMBL
  A0A0G2K4C9 ENTREZGENE
  A0ABK0L5K6_RAT UniProtKB/TrEMBL
  A6HCN9 ENTREZGENE, UniProtKB/TrEMBL
  A6HCP0 ENTREZGENE, UniProtKB/TrEMBL
  P08723 ENTREZGENE, UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-10-14 Sbp  spermine binding protein  Zg16b  zymogen granule protein 16B  Name and Symbol changed 629549 APPROVED
2016-07-05 Zg16b  zymogen granule protein 16B  Sbp  spermine binding protein  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2002-06-10 Sbp  spermine binding protein      Name updated 70584 APPROVED

RGD Curation Notes
Note Type Note Reference
gene_expression expressed in prostate 69974
gene_regulation expression is induced by 5 alpha-dihydrotestosterone 69974