Tnp2 (transition protein 2) - 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: Tnp2 (transition protein 2) Rattus norvegicus
Analyze
Symbol: Tnp2
Name: transition protein 2
RGD ID: 3885
Description: Enables zinc ion binding activity. Predicted to be involved in several processes, including penetration of zona pellucida; positive regulation of protein processing; and sperm DNA condensation. Predicted to act upstream of or within binding activity of sperm to zona pellucida and flagellated sperm motility. Is active in nucleus. Orthologous to human TNP2 (transition protein 2); INTERACTS WITH 17alpha-ethynylestradiol; 17beta-estradiol; 2,2',4,4'-Tetrabromodiphenyl ether.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: haploid expressed, male germcell specific, chromatin binding; nuclear transition protein 2; TP-2; TP2
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Pig
Green Monkey
Naked Mole-Rat
Black Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8105,386,735 - 5,387,463 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl105,383,885 - 5,387,467 (+)EnsemblGRCr8
mRatBN7.2104,879,812 - 4,880,540 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl104,879,812 - 4,880,538 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx109,576,387 - 9,577,115 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0109,097,503 - 9,098,231 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0104,735,784 - 4,736,512 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0104,953,898 - 4,954,626 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl104,953,879 - 4,954,624 (+)Ensemblrn6Rnor6.0
Rnor_5.0103,780,384 - 3,781,112 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.4104,816,612 - 4,817,340 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera103,901,408 - 3,902,136 (+)NCBICelera
RGSC_v3.1104,816,611 - 4,817,338 (+)NCBI
Cytogenetic Map10q11NCBI
JBrowse:




Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component
chromosome  (IEA)
nucleolus  (IEA)
nucleosome  (IEA,ISO,ISS)
nucleus  (IDA,IEA,ISO)

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. Rat ISS GO annotations from GOA human gene data--August 2006 GOA data from the GO Consortium
3. Cloning of cDNA encoding rat spermatidal protein TP2 and expression in Escherichia coli. Meetei AR and Rao MR, Protein Expr Purif 1996 Dec;8(4):409-15.
4. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
5. Electronic Transfer of LocusLink and RefSeq Data NCBI rat LocusLink and RefSeq merged data July 26, 2002
6. Involvement of importin-4 in the transport of transition protein 2 into the spermatid nucleus. Pradeepa MM, etal., Mol Cell Biol. 2008 Jul;28(13):4331-41. doi: 10.1128/MCB.00519-07. Epub 2007 Aug 6.
7. GOA pipeline RGD automated data pipeline
8. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
9. 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:1627265   PMID:1930189   PMID:2726489   PMID:3307778   PMID:8076694   PMID:8720108   PMID:10369260   PMID:10961985   PMID:11385107   PMID:11772016   PMID:14514679   PMID:14680821  
PMID:15051954   PMID:15083521   PMID:15163613   PMID:15189834   PMID:15489334   PMID:15685642   PMID:17261847   PMID:18562159   PMID:19506090   PMID:19710011   PMID:28366643  


Genomics

Comparative Map Data
Tnp2
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8105,386,735 - 5,387,463 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl105,383,885 - 5,387,467 (+)EnsemblGRCr8
mRatBN7.2104,879,812 - 4,880,540 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl104,879,812 - 4,880,538 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx109,576,387 - 9,577,115 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0109,097,503 - 9,098,231 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0104,735,784 - 4,736,512 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0104,953,898 - 4,954,626 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl104,953,879 - 4,954,624 (+)Ensemblrn6Rnor6.0
Rnor_5.0103,780,384 - 3,781,112 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.4104,816,612 - 4,817,340 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera103,901,408 - 3,902,136 (+)NCBICelera
RGSC_v3.1104,816,611 - 4,817,338 (+)NCBI
Cytogenetic Map10q11NCBI
TNP2
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381611,267,857 - 11,269,325 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1611,267,748 - 11,269,533 (-)Ensemblhg38GRCh38
GRCh371611,361,714 - 11,363,182 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361611,269,215 - 11,270,661 (-)NCBIBuild 36Build 36hg18NCBI36
Build 341611,269,214 - 11,270,661NCBI
Celera1611,531,105 - 11,532,551 (-)NCBICelera
Cytogenetic Map16p13.13NCBI
HuRef1611,279,446 - 11,280,892 (-)NCBIHuRef
CHM1_11611,361,620 - 11,363,066 (-)NCBICHM1_1
T2T-CHM13v2.01611,304,079 - 11,305,547 (-)NCBIT2T-CHM13v2.0
Tnp2
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391610,605,799 - 10,606,519 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1610,605,800 - 10,606,524 (-)EnsemblGRCm39 EnsemblGRCm39
GRCm381610,787,935 - 10,788,655 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1610,787,936 - 10,788,660 (-)Ensemblmm10GRCm38
MGSCv371610,788,028 - 10,788,748 (-)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv361610,701,513 - 10,702,233 (-)NCBIMGSCv36mm8
Celera1611,415,373 - 11,416,093 (-)NCBICelera
Cytogenetic Map16A1NCBI
cM Map165.83NCBI
Tnp2
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0NW_0049554427,311,826 - 7,314,046 (+)NCBIChiLan1.0ChiLan1.0
TNP2
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21811,817,009 - 11,819,356 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11615,587,457 - 15,589,800 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01610,209,801 - 10,211,466 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11611,431,694 - 11,433,158 (-)NCBIPanPan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1611,431,822 - 11,433,087 (-)EnsemblpanPan2panpan1.1
TNP2
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1631,498,361 - 31,498,740 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl631,426,715 - 31,499,842 (+)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha632,881,238 - 32,881,617 (+)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.0631,680,942 - 31,682,492 (+)NCBIROS_Cfam_1.0ROS_Cfam_1.0
UMICH_Zoey_3.1631,494,292 - 31,494,671 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0631,368,582 - 31,368,961 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0631,792,757 - 31,794,307 (+)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
TNP2
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl331,870,068 - 31,871,702 (+)EnsemblsusScr11Sscrofa11.1
Sscrofa11.1331,868,517 - 31,871,530 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2332,659,663 - 32,661,176 (+)NCBISscrofa10.2Sscrofa10.2susScr3
Pig Cytomap3p13-centNCBI
TNP2
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1510,744,762 - 10,746,244 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl510,744,915 - 10,746,159 (-)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
Vero_WHO_p1.0NW_02366606819,417,005 - 19,418,243 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Tnp2
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046248248,453,667 - 8,454,987 (-)NCBIHetGla 1.0HetGla 1.0hetGla2
Tnp2
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v1911,566,920 - 11,567,643 (+)NCBIRrattus_CSIRO_v1

Variants

.
Variants in Tnp2
8 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:28
Count of miRNA genes:20
Interacting mature miRNAs:27
Transcripts:ENSRNOT00000003455
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 (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
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
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
631554Bp133Blood pressure QTL 1330.005arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)10125055464349221Rat
1549898Neuinf3Neuroinflammation QTL 326.4nervous system integrity trait (VT:0010566)MHC Class II RT1A-positive spinal cord ventral horn area to total spinal cord ventral horn area ratio (CMO:0001980)1015893911Rat
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

Markers in Region
D10Arb26  
Rat AssemblyChrPosition (strand)SourceJBrowse
GRCr8105,385,825 - 5,386,053 (+)Marker Load Pipeline
mRatBN7.2104,878,902 - 4,879,130 (+)MAPPERmRatBN7.2
Rnor_6.0104,952,989 - 4,953,216NCBIRnor6.0
Rnor_5.0103,779,475 - 3,779,702UniSTSRnor5.0
Celera103,900,499 - 3,900,726UniSTS
FHH x ACI Map104.54UniSTS
FHH x ACI Map104.54RGD
Cytogenetic Map10q11UniSTS
RH142231  
Rat AssemblyChrPosition (strand)SourceJBrowse
GRCr8105,387,141 - 5,387,245 (+)Marker Load Pipeline
mRatBN7.2104,880,218 - 4,880,322 (+)MAPPERmRatBN7.2
Rnor_6.0104,954,305 - 4,954,408NCBIRnor6.0
Rnor_5.0103,780,791 - 3,780,894UniSTSRnor5.0
RGSC_v3.4104,817,019 - 4,817,122UniSTSRGSC3.4
Celera103,901,815 - 3,901,918UniSTS
Cytogenetic Map10q11UniSTS


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
nervous system
renal system
reproductive system
respiratory system
sensory system
visual system
9 9 11 50 48 46 18 33 18 6 107 65 32 9 34 28 2 2

Sequence


Ensembl Acc Id: ENSRNOT00000003455   ⟹   ENSRNOP00000003455
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl105,383,885 - 5,387,467 (+)Ensembl
mRatBN7.2 Ensembl104,879,812 - 4,880,538 (+)Ensembl
Rnor_6.0 Ensembl104,953,879 - 4,954,624 (+)Ensembl
RefSeq Acc Id: NM_017057   ⟹   NP_058753
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8105,386,735 - 5,387,463 (+)NCBI
mRatBN7.2104,879,812 - 4,880,540 (+)NCBI
Rnor_6.0104,953,898 - 4,954,626 (+)NCBI
Rnor_5.0103,780,384 - 3,781,112 (+)NCBI
RGSC_v3.4104,816,612 - 4,817,340 (+)RGD
Celera103,901,408 - 3,902,136 (+)RGD
Sequence:
RefSeq Acc Id: NP_058753   ⟸   NM_017057
- UniProtKB: B3LF38 (UniProtKB/TrEMBL),   A6K4I8 (UniProtKB/TrEMBL),   F7F3S7 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000003455   ⟸   ENSRNOT00000003455

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-P11101-F1-model_v2 AlphaFold P11101 1-114 view protein structure

Transcriptome

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

Promoters
RGD ID:13696941
Promoter ID:EPDNEW_R7466
Type:multiple initiation site
Name:Tnp2_1
Description:transition protein 2
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_6.0104,953,887 - 4,953,947EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:3885 AgrOrtholog
BioCyc Gene G2FUF-26141 BioCyc
Ensembl Genes ENSRNOG00000002566 Ensembl
IMAGE_CLONE IMAGE:7131008 IMAGE-MGC_LOAD
InterPro TP2 UniProtKB/Swiss-Prot
KEGG Report rno:24840 UniProtKB/Swiss-Prot
MGC_CLONE MGC:93497 IMAGE-MGC_LOAD
NCBI Gene 24840 ENTREZGENE
PANTHER NUCLEAR TRANSITION PROTEIN 2 UniProtKB/Swiss-Prot
  PTHR17488 UniProtKB/Swiss-Prot
Pfam TP2 UniProtKB/Swiss-Prot
PhenoGen Tnp2 PhenoGen
PROSITE TP2_1 UniProtKB/Swiss-Prot
  TP2_2 UniProtKB/Swiss-Prot
RatGTEx ENSRNOG00000002566 RatGTEx
UniProt A0ABZ3NNN2_RAT UniProtKB/TrEMBL
  A6K4I8 ENTREZGENE, UniProtKB/TrEMBL
  B3LF38 ENTREZGENE
  F7F3S7 ENTREZGENE, UniProtKB/TrEMBL
  P11101 ENTREZGENE, UniProtKB/Swiss-Prot
UniProt Secondary Q64390 UniProtKB/Swiss-Prot
  Q64561 UniProtKB/Swiss-Prot
  Q6AYX7 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2003-04-09 Tnp2  transition protein 2    Transition protein 2  Name updated 629478 APPROVED
2002-06-10 Tnp2  Transition protein 2      Symbol and Name status set to approved 70586 APPROVED

RGD Curation Notes
Note Type Note Reference
gene_function binds two atoms of zinc per molecule 634495