Pgbd5 (piggyBac transposable element derived 5) - Rat Genome Database

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Gene: Pgbd5 (piggyBac transposable element derived 5) Ictidomys tridecemlineatus
Analyze
Symbol: Pgbd5
Name: piggyBac transposable element derived 5
RGD ID: 12496264
Description: ENCODES a protein that exhibits transposase activity (inferred); INVOLVED IN non-replicative DNA transposition (inferred); ASSOCIATED WITH Actin-Accumulation Myopathy (ortholog); congenital disorder of glycosylation type IIq (ortholog); gastrointestinal stromal tumor (ortholog); FOUND IN nucleoplasm (inferred); nucleus (inferred)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: piggyBac transposable element-derived protein 5
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: SpeTri2.0 - Squirrel SpeTri2.0 Assembly
Position:
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440934443,701,625 - 43,721,108 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493648419,866,802 - 19,886,354 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_00493648419,866,855 - 19,886,330 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component
nucleoplasm  (IEA)
nucleus  (IEA)

Molecular Function

References
Additional References at PubMed
PMID:30032202  


Genomics

Comparative Map Data
Pgbd5
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440934443,701,625 - 43,721,108 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493648419,866,802 - 19,886,354 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_00493648419,866,855 - 19,886,330 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
PGBD5
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381230,314,490 - 230,426,332 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1230,314,490 - 230,426,332 (-)EnsemblGRCh38hg38GRCh38
GRCh371230,450,236 - 230,562,078 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361228,524,015 - 228,579,990 (-)NCBINCBI36Build 36hg18NCBI36
Build 341226,764,127 - 226,820,102NCBI
Celera1203,723,266 - 203,779,187 (-)NCBICelera
Cytogenetic Map1q42.13NCBI
HuRef1200,957,596 - 201,046,325 (-)NCBIHuRef
HuRef1200,945,651 - 200,953,319 (-)NCBIHuRef
CHM1_11231,729,952 - 231,834,738 (-)NCBICHM1_1
T2T-CHM13v2.01229,693,950 - 229,806,671 (-)NCBIT2T-CHM13v2.0
Pgbd5
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm398125,095,788 - 125,161,230 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl8125,095,788 - 125,166,397 (-)EnsemblGRCm39 Ensembl
GRCm388124,369,049 - 124,433,936 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl8124,369,049 - 124,439,658 (-)EnsemblGRCm38mm10GRCm38
MGSCv378126,892,949 - 126,957,836 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv368127,255,139 - 127,320,026 (-)NCBIMGSCv36mm8
Celera8128,654,449 - 128,719,752 (-)NCBICelera
Cytogenetic Map8E2NCBI
cM Map872.65NCBI
Pgbd5
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81969,234,171 - 69,299,315 (-)NCBIGRCr8
mRatBN7.21952,336,751 - 52,401,906 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1952,336,751 - 52,402,397 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1959,122,078 - 59,187,267 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01959,970,315 - 60,036,388 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01962,048,532 - 62,113,725 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01957,126,110 - 57,192,182 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1957,127,054 - 57,192,095 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01967,834,478 - 67,900,336 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41954,542,070 - 54,608,511 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11954,546,634 - 54,580,371 (-)NCBI
Celera1951,707,799 - 51,772,592 (-)NCBICelera
Cytogenetic Map19q12NCBI
Pgbd5
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554928,032,220 - 8,090,898 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554928,032,220 - 8,090,898 (+)NCBIChiLan1.0ChiLan1.0
PGBD5
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2118,781,686 - 18,887,031 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1118,974,171 - 19,079,180 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01205,869,632 - 205,974,330 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11210,897,173 - 211,000,549 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1210,897,173 - 211,000,555 (-)Ensemblpanpan1.1panPan2
PGBD5
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.148,989,542 - 9,025,836 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl48,989,430 - 9,046,954 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha48,910,647 - 9,017,617 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.048,943,416 - 9,049,944 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl48,942,959 - 9,049,242 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.148,953,894 - 9,060,829 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.049,069,047 - 9,175,572 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.049,296,509 - 9,403,256 (+)NCBIUU_Cfam_GSD_1.0
PGBD5
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1459,842,468 - 59,935,021 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11459,842,653 - 59,935,025 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21464,655,307 - 64,747,538 (-)NCBISscrofa10.2Sscrofa10.2susScr3
PGBD5
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12567,581,074 - 67,686,624 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl2567,581,073 - 67,686,931 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366605569,481,786 - 69,588,201 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Pgbd5
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462477519,007,144 - 19,068,690 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462477519,007,463 - 19,068,619 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2


Expression


Sequence

Nucleotide Sequences
RefSeq Transcripts XM_005320382 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide JAESOR010004404 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSSTOT00000025410   ⟹   ENSSTOP00000023415
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
SpeTri2.0 EnsemblNW_00493648419,866,802 - 19,886,354 (+)Ensembl
RefSeq Acc Id: XM_005320382   ⟹   XP_005320439
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2NW_02440934443,701,625 - 43,721,108 (+)NCBI
SpeTri2.0NW_00493648419,866,855 - 19,886,330 (+)NCBI
Sequence:
Protein Sequences
Protein RefSeqs XP_005320439 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSSTOP00000023415.2
GenBank Protein KAG3257880 (Get FASTA)   NCBI Sequence Viewer  
Reference Protein Sequences
RefSeq Acc Id: XP_005320439   ⟸   XM_005320382
- UniProtKB: I3NGB8 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSSTOP00000023415   ⟸   ENSSTOT00000025410
Protein Domains
PiggyBac transposable element-derived protein


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSSTOG00000021321 Ensembl, UniProtKB/TrEMBL
Ensembl Transcript ENSSTOT00000025410.2 UniProtKB/TrEMBL
InterPro PGBD UniProtKB/TrEMBL
  PGBD5 UniProtKB/TrEMBL
NCBI Gene Pgbd5 ENTREZGENE
PANTHER PIGGYBAC TRANSPOSABLE ELEMENT-DERIVED PROTEIN 5 UniProtKB/TrEMBL
  PTHR28576 UniProtKB/TrEMBL
Pfam DDE_Tnp_1_7 UniProtKB/TrEMBL
UniProt I3NGB8 ENTREZGENE, UniProtKB/TrEMBL