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 QTLs Strains Markers Genome Information Ontologies Cell Lines References Download Submit Data
OntoMate (Literature Search) JBrowse (Genome Browser) Synteny Browser (VCMap)  (beta) 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) Overgo Probe Designer
Aging & Age-Related Disease Cancer & Neoplastic Disease Cardiovascular Disease COVID-19 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   new Genetic Models Autism Models Rat PhenoMiner (Quantitative Phenotypes) Chinchilla PhenoMiner Expected Ranges (Quantitative Phenotype) PhenoMiner Term Comparison Hybrid Rat Diversity Panel Phenotypes GERRC (Gene Editing Rat Resource Center) 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 Poster Archive Nomenclature Guidelines Resource Links Laboratory Resources Employment Resources
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; 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 Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21012,946,036 - 12,968,439 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1012,946,036 - 12,968,439 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1017,690,923 - 17,713,362 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01017,179,709 - 17,202,148 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01012,678,789 - 12,701,174 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01013,289,502 - 13,309,338 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1013,289,508 - 13,309,332 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01013,121,713 - 13,125,338 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41013,183,508 - 13,186,889 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11013,183,519 - 13,186,889 (+)NCBI
Celera1012,639,944 - 12,654,887 (+)NCBICelera
Cytogenetic Map10q12NCBI
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. 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
mRatBN7.21012,946,036 - 12,968,439 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1012,946,036 - 12,968,439 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1017,690,923 - 17,713,362 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01017,179,709 - 17,202,148 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01012,678,789 - 12,701,174 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01013,289,502 - 13,309,338 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1013,289,508 - 13,309,332 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01013,121,713 - 13,125,338 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41013,183,508 - 13,186,889 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11013,183,519 - 13,186,889 (+)NCBI
Celera1012,639,944 - 12,654,887 (+)NCBICelera
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 Ensembl
GRCm381723,922,551 - 23,945,603 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1723,941,672 - 23,945,607 (+)EnsemblGRCm38mm10GRCm38
MGSCv371724,078,963 - 24,082,574 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361723,669,618 - 23,673,226 (+)NCBIMGSCv36mm8
Celera1724,451,207 - 24,454,991 (+)NCBICelera
Cytogenetic Map17A3.3NCBI
cM Map1712.15NCBI

Variants

.
Variants in Sbp
254 total Variants

QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
634329Pia15Pristane induced arthritis QTL 153.1joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)10124158324Rat
2293680Bss40Bone structure and strength QTL 405.660.0001femur strength trait (VT:0010010)femur total energy absorbed before break (CMO:0001677)10135225947Rat
634327Hc4Hypercalciuria QTL 42.4urine calcium amount (VT:0002985)urine calcium excretion rate (CMO:0000763)10138328221Rat
7411611Foco17Food consumption QTL 1718.70.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)10142315980Rat
70223Bp57Blood pressure QTL 575arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)10180676123Rat
10401803Kidm50Kidney mass QTL 50kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)1041834445418344Rat
631554Bp133Blood pressure QTL 1330.005arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1074336463851208Rat
1576304Schws7Schwannoma susceptibility QTL 70.0115nervous system integrity trait (VT:0010566)percentage of study population developing trigeminal nerve neurilemmomas during a period of time (CMO:0002017)10476552719816042Rat
631828Alc5Alcohol consumption QTL 52.4consumption behavior trait (VT:0002069)ethanol drink intake rate (CMO:0001407)10514402717245662Rat
737820Alc9Alcohol consumption QTL 92.2consumption behavior trait (VT:0002069)ethanol drink intake rate (CMO:0001407)10514402719233348Rat
2313064Bmd71Bone mineral density QTL 710.90.0001tibia mineral mass (VT:1000283)compact volumetric bone mineral density (CMO:0001730)10538701450387014Rat
2313066Bss63Bone structure and strength QTL 631.40.0001tibia strength trait (VT:1000284)bone polar moment of inertia (CMO:0001558)10538701450387014Rat
2313081Bss64Bone structure and strength QTL 641.30.0001tibia strength trait (VT:1000284)tibia total energy absorbed before break (CMO:0001736)10538701450387014Rat
2313095Bss62Bone structure and strength QTL 621.50.0001tibia size trait (VT:0100001)tibia midshaft cross-sectional area (CMO:0001717)10538701450387014Rat
2313104Bss61Bone structure and strength QTL 610.90.0001tibia area (VT:1000281)tibia midshaft cross-sectional area (CMO:0001717)10538701450387014Rat
2298544Neuinf9Neuroinflammation QTL 94.6nervous system integrity trait (VT:0010566)spinal cord complement component 1, q subcomponent, B chain mRNA level (CMO:0002126)10580199062146030Rat
631660Hcar1Hepatocarcinoma resistance QTL 13.40.0001liver integrity trait (VT:0010547)volume of individual liver tumorous lesion (CMO:0001078)10615418215990232Rat
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)10615418273453136Rat
61427Cia16Collagen induced arthritis QTL 163.2joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)10635789696121100Rat
1578761Stresp21Stress response QTL 213.3thymus mass (VT:0004954)thymus wet weight (CMO:0000855)10637574651375746Rat
2303118Mamtr7Mammary tumor resistance QTL 70.003mammary gland integrity trait (VT:0010552)mammary tumor growth rate (CMO:0000344)109658275104670812Rat
9590310Scort19Serum corticosterone level QTL 196.30.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)101147401056474010Rat
9590268Scort13Serum corticosterone level QTL 133.260.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)101147401056474010Rat
9589136Insul27Insulin level QTL 2710.460.001blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)101147401056474010Rat


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

alimentary part of gastrointestinal system circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system musculoskeletal system nervous system renal system reproductive system respiratory system
High
Medium
Low 4
Below cutoff 1 2 4 2 2 2 1 1 1 12 2

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000083075   ⟹   ENSRNOP00000071728
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1012,964,680 - 12,968,439 (+)Ensembl
Rnor_6.0 Ensembl1013,305,578 - 13,309,332 (+)Ensembl
RefSeq 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
RefSeq Acc Id: ENSRNOT00000089902   ⟹   ENSRNOP00000068850
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1013,306,169 - 13,309,176 (+)Ensembl
RefSeq Acc Id: NM_001309360   ⟹   NP_001296289
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
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
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
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:
RefSeq Acc Id: XM_039085287   ⟹   XP_038941215
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21012,965,104 - 12,968,439 (+)NCBI
Reference Protein Sequences
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:
RefSeq Acc Id: ENSRNOP00000071728   ⟸   ENSRNOT00000083075
RefSeq Acc Id: ENSRNOP00000072992   ⟸   ENSRNOT00000085694
RefSeq Acc Id: ENSRNOP00000068850   ⟸   ENSRNOT00000089902
RefSeq Acc Id: XP_038941215   ⟸   XM_039085287
- Peptide Label: isoform X1
RefSeq Acc Id: NP_001386231   ⟸   NM_001399302
- Peptide Label: isoform 1 precursor
- UniProtKB: A0A0G2K176 (UniProtKB/TrEMBL),   A6HCP0 (UniProtKB/TrEMBL)
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


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:3623 AgrOrtholog
BioCyc Gene G2FUF-25891 BioCyc
Ensembl Genes ENSRNOG00000058058 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000071728 ENTREZGENE
  ENSRNOP00000071728.1 UniProtKB/TrEMBL
  ENSRNOP00000072992 ENTREZGENE
  ENSRNOP00000072992.1 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000083075 ENTREZGENE
  ENSRNOT00000083075.2 UniProtKB/TrEMBL
  ENSRNOT00000085694 ENTREZGENE
  ENSRNOT00000085694.2 UniProtKB/TrEMBL
Gene3D-CATH 2.100.10.30 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
InterPro Jacalin-like_lectin_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Jacalin-like_lectin_dom_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:25540 UniProtKB/TrEMBL
NCBI Gene 25540 ENTREZGENE
PANTHER OS11G0524900 PROTEIN UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  ZYMOGEN GRANULE PROTEIN 16 HOMOLOG B UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam Jacalin UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Sbp PhenoGen
PROSITE JACALIN_LECTIN UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
SMART Jacalin UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF51101 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
TIGR TC205173
UniProt A0A0G2K176 ENTREZGENE, UniProtKB/TrEMBL
  A0A0G2K4C9 ENTREZGENE, 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