Zpbp (zona pellucida binding protein) - Rat Genome Database

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Gene: Zpbp (zona pellucida binding protein) Rattus norvegicus
Analyze
Symbol: Zpbp
Name: zona pellucida binding protein
RGD ID: 1563985
Description: Predicted to be involved in acrosome assembly and binding activity of sperm to zona pellucida. Predicted to be located in cell body. Predicted to be part of zona pellucida receptor complex. Predicted to be active in acrosomal vesicle. Human ortholog(s) of this gene implicated in spermatogenic failure. Orthologous to human ZPBP (zona pellucida binding protein); INTERACTS WITH aflatoxin B1; DDT; endosulfan.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: zona pellucida-binding protein 1
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81490,047,207 - 90,244,727 (-)NCBIGRCr8
mRatBN7.21485,830,971 - 86,030,778 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1485,833,548 - 86,033,095 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1490,249,781 - 90,441,557 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01491,494,536 - 91,686,317 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01487,961,714 - 88,153,510 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01491,360,670 - 91,556,406 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1491,363,152 - 91,556,231 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01491,149,940 - 91,343,440 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Celera1484,840,452 - 85,036,871 (-)NCBICelera
Cytogenetic Map14q21NCBI
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

Biological Process

Cellular Component

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. GOA pipeline RGD automated data pipeline
3. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
4. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
5. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, etal., Proc Natl Acad Sci U S A. 2002 Dec 24;99(26):16899-903. Epub 2002 Dec 11.
Additional References at PubMed
PMID:17664285   PMID:19204925   PMID:21630459   PMID:21880732  


Genomics

Comparative Map Data
Zpbp
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81490,047,207 - 90,244,727 (-)NCBIGRCr8
mRatBN7.21485,830,971 - 86,030,778 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1485,833,548 - 86,033,095 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1490,249,781 - 90,441,557 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01491,494,536 - 91,686,317 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01487,961,714 - 88,153,510 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01491,360,670 - 91,556,406 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1491,363,152 - 91,556,231 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01491,149,940 - 91,343,440 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Celera1484,840,452 - 85,036,871 (-)NCBICelera
Cytogenetic Map14q21NCBI
ZPBP
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38749,840,654 - 50,093,246 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl749,850,421 - 50,121,329 (-)EnsemblGRCh38hg38GRCh38
GRCh37749,977,037 - 50,132,842 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36749,947,585 - 50,103,372 (-)NCBINCBI36Build 36hg18NCBI36
Build 34749,754,299 - 49,910,087NCBI
Celera750,071,197 - 50,226,950 (-)NCBICelera
Cytogenetic Map7p12.2NCBI
HuRef749,858,062 - 50,013,686 (-)NCBIHuRef
CHM1_1749,979,315 - 50,134,845 (-)NCBICHM1_1
T2T-CHM13v2.0750,001,730 - 50,254,410 (-)NCBIT2T-CHM13v2.0
CRA_TCAGchr7v2750,014,145 - 50,170,048 (-)NCBI
Zpbp
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391111,229,624 - 11,414,222 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1111,229,626 - 11,412,408 (-)EnsemblGRCm39 Ensembl
GRCm381111,279,624 - 11,464,223 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1111,279,626 - 11,462,408 (-)EnsemblGRCm38mm10GRCm38
MGSCv371111,180,043 - 11,362,422 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361111,182,516 - 11,362,411 (-)NCBIMGSCv36mm8
Celera1111,735,728 - 11,921,903 (-)NCBICelera
Cytogenetic Map11A1NCBI
cM Map116.76NCBI
Zpbp
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554563,887,839 - 3,936,453 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554563,887,746 - 3,935,541 (+)NCBIChiLan1.0ChiLan1.0
ZPBP
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2654,710,035 - 54,971,671 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan17103,034,759 - 103,296,390 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0750,576,485 - 50,735,411 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1750,826,058 - 50,981,644 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl750,826,058 - 50,981,644 (-)Ensemblpanpan1.1panPan2
ZPBP
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1181,374,312 - 1,461,722 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl181,374,331 - 1,461,710 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha181,365,414 - 1,453,133 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0181,431,440 - 1,519,092 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl181,431,660 - 1,519,088 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1181,406,035 - 1,493,564 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0181,402,991 - 1,490,466 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0181,538,951 - 1,626,677 (-)NCBIUU_Cfam_GSD_1.0
Zpbp
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405118104,680,557 - 104,779,483 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049366861,744,144 - 1,841,800 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049366861,742,290 - 1,842,998 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
ZPBP
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl9136,105,129 - 136,186,744 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.19136,105,129 - 136,186,744 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.29149,631,317 - 149,713,187 (-)NCBISscrofa10.2Sscrofa10.2susScr3
ZPBP
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1218,711,696 - 8,861,121 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl218,712,454 - 8,860,249 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366606213,405,655 - 13,564,835 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Zpbp
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046247404,029,823 - 4,088,659 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Zpbp
763 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:38
Count of miRNA genes:37
Interacting mature miRNAs:38
Transcripts:ENSRNOT00000039182
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 (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
2317879Alcrsp27Alcohol response QTL 273.30.63response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)1456631369101631369Rat
4889951Bss92Bone structure and strength QTL 923.9tibia area (VT:1000281)tibia-fibula cortical bone total cross-sectional area (CMO:0001721)148205747195876975Rat
9590294Uminl4Urine mineral level QTL 45.660.001urine mineral amount (VT:0015086)urine electrolyte level (CMO:0000593)1455624247100624247Rat
631523Pia13Pristane induced arthritis QTL 133.3joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)144079346098037301Rat
631839Niddm37Non-insulin dependent diabetes mellitus QTL 373.37blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)141103062295876975Rat
634328Hc5Hypercalciuria QTL 52.3urine calcium amount (VT:0002985)urine calcium excretion rate (CMO:0000763)1458184885103184885Rat
9589034Epfw11Epididymal fat weight QTL 1160.001epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)1455624247100624247Rat
1300136Rf22Renal function QTL 223.9renal blood flow trait (VT:2000006)absolute change in renal vascular resistance (CMO:0001900)144226252995023211Rat
1549834Scl45Serum cholesterol level QTL 455.8blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)145002321195023211Rat
1582197Gluco27Glucose level QTL 273.40.0006blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)147341532392554092Rat
1582209Gluco20Glucose level QTL 203.80.0005blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)147341532392554092Rat
1582236Gluco22Glucose level QTL 223.30.0164blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)147341532392554092Rat
1582250Gluco26Glucose level QTL 263.30.0009blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)147341532395876975Rat
1582255Gluco29Glucose level QTL 293.10.0025blood glucose amount (VT:0000188)absolute change in blood glucose level area under curve (CMO:0002034)147341532392554092Rat
1582259Gluco23Glucose level QTL 233.10.0008blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)1470053989104886043Rat
1641900Alcrsp11Alcohol response QTL 11alcohol metabolism trait (VT:0015089)blood ethanol level (CMO:0000535)1470053989104886043Rat
631213Bw60Body weight QTL604.51retroperitoneal fat pad mass (VT:0010430)retroperitoneal fat pad weight to body weight ratio (CMO:0000635)147995092195876975Rat
2300197Scl59Serum cholesterol level QTL 59blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)1455147478100147478Rat

Markers in Region
D14Got64  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21485,973,840 - 85,974,001 (+)MAPPERmRatBN7.2
Rnor_6.01491,502,983 - 91,503,141NCBIRnor6.0
Rnor_5.01491,291,042 - 91,291,200UniSTSRnor5.0
RGSC_v3.41492,271,281 - 92,271,440RGDRGSC3.4
RGSC_v3.41492,271,282 - 92,271,440UniSTSRGSC3.4
RGSC_v3.11492,290,427 - 92,290,585RGD
Celera1484,980,666 - 84,980,824UniSTS
RH 3.4 Map14634.79UniSTS
RH 3.4 Map14634.79RGD
RH 2.0 Map14776.1RGD
Cytogenetic Map14q21UniSTS


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 integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High
Medium 1 1 7
Low 1 31 34 19 18 19 4 4 68 35 33 10 4
Below cutoff 2 12 22 22 22 4 5 6 1 1 4

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000039182   ⟹   ENSRNOP00000030318
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1485,833,548 - 86,033,095 (-)Ensembl
Rnor_6.0 Ensembl1491,363,152 - 91,556,231 (-)Ensembl
RefSeq Acc Id: NM_001025139   ⟹   NP_001020310
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81490,047,211 - 90,244,437 (-)NCBI
mRatBN7.21485,833,547 - 86,030,777 (-)NCBI
Rnor_6.01491,363,244 - 91,556,105 (-)NCBI
Rnor_5.01491,149,940 - 91,343,440 (-)NCBI
Celera1484,840,452 - 85,036,871 (-)RGD
Sequence:
RefSeq Acc Id: XM_006251505   ⟹   XP_006251567
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81490,047,207 - 90,244,365 (-)NCBI
mRatBN7.21485,830,971 - 86,030,705 (-)NCBI
Rnor_6.01491,360,670 - 91,556,048 (-)NCBI
Rnor_5.01491,149,940 - 91,343,440 (-)NCBI
Sequence:
RefSeq Acc Id: XM_039092301   ⟹   XP_038948229
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81490,047,207 - 90,244,365 (-)NCBI
mRatBN7.21485,830,971 - 86,030,778 (-)NCBI
RefSeq Acc Id: XM_039092302   ⟹   XP_038948230
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81490,047,207 - 90,244,365 (-)NCBI
mRatBN7.21485,830,971 - 86,030,705 (-)NCBI
RefSeq Acc Id: XM_039092304   ⟹   XP_038948232
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81490,047,207 - 90,202,764 (-)NCBI
mRatBN7.21485,830,971 - 85,989,100 (-)NCBI
RefSeq Acc Id: XM_039092305   ⟹   XP_038948233
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81490,047,207 - 90,241,995 (-)NCBI
mRatBN7.21485,830,971 - 86,028,334 (-)NCBI
RefSeq Acc Id: XM_039092306   ⟹   XP_038948234
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81490,047,207 - 90,200,147 (-)NCBI
mRatBN7.21485,830,971 - 85,986,487 (-)NCBI
RefSeq Acc Id: XM_063273482   ⟹   XP_063129552
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81490,047,207 - 90,244,727 (-)NCBI
RefSeq Acc Id: XM_063273483   ⟹   XP_063129553
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81490,047,207 - 90,244,727 (-)NCBI
RefSeq Acc Id: XM_063273484   ⟹   XP_063129554
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81490,047,207 - 90,202,686 (-)NCBI
RefSeq Acc Id: XM_063273485   ⟹   XP_063129555
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81490,047,207 - 90,241,984 (-)NCBI
Reference Protein Sequences
RefSeq Acc Id: NP_001020310   ⟸   NM_001025139
- UniProtKB: Q6AXU2 (UniProtKB/TrEMBL),   F1LRM9 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006251567   ⟸   XM_006251505
- Peptide Label: isoform X5
- UniProtKB: A0A8J8XCE4 (UniProtKB/TrEMBL),   A6KJ99 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000030318   ⟸   ENSRNOT00000039182
RefSeq Acc Id: XP_038948229   ⟸   XM_039092301
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038948230   ⟸   XM_039092302
- Peptide Label: isoform X4
RefSeq Acc Id: XP_038948233   ⟸   XM_039092305
- Peptide Label: isoform X8
RefSeq Acc Id: XP_038948232   ⟸   XM_039092304
- Peptide Label: isoform X6
RefSeq Acc Id: XP_038948234   ⟸   XM_039092306
- Peptide Label: isoform X8
RefSeq Acc Id: XP_063129552   ⟸   XM_063273482
- Peptide Label: isoform X2
RefSeq Acc Id: XP_063129553   ⟸   XM_063273483
- Peptide Label: isoform X3
RefSeq Acc Id: XP_063129555   ⟸   XM_063273485
- Peptide Label: isoform X9
RefSeq Acc Id: XP_063129554   ⟸   XM_063273484
- Peptide Label: isoform X7
Protein Domains
Zona-pellucida-binding protein 1/2 C-terminal   Zona-pellucida-binding protein 1/2 N-terminal

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q6AXU2-F1-model_v2 AlphaFold Q6AXU2 1-409 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:1563985 AgrOrtholog
BioCyc Gene G2FUF-15003 BioCyc
Ensembl Genes ENSRNOG00000027801 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000039182.6 UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7134936 IMAGE-MGC_LOAD
InterPro Sp38-bd UniProtKB/TrEMBL
  ZPBP1/2_C UniProtKB/TrEMBL
  ZPBP1/2_N UniProtKB/TrEMBL
KEGG Report rno:498415 UniProtKB/TrEMBL
MGC_CLONE MGC:94468 IMAGE-MGC_LOAD
NCBI Gene 498415 ENTREZGENE
PANTHER Sp38_bd UniProtKB/TrEMBL
  ZONA PELLUCIDA-BINDING PROTEIN 1 UniProtKB/TrEMBL
Pfam Sp38 UniProtKB/TrEMBL
  Sp38_C UniProtKB/TrEMBL
PhenoGen Zpbp PhenoGen
RatGTEx ENSRNOG00000027801 RatGTEx
UniProt A0A8J8XCE4 ENTREZGENE, UniProtKB/TrEMBL
  A6KJ99 ENTREZGENE, UniProtKB/TrEMBL
  F1LRM9 ENTREZGENE
  Q6AXU2 ENTREZGENE, UniProtKB/TrEMBL
UniProt Secondary F1LRM9 UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2006-02-09 Zpbp  zona pellucida binding protein      Symbol and Name status set to provisional 70820 PROVISIONAL