PCID2 (PCI domain containing 2) - Rat Genome Database

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Gene: PCID2 (PCI domain containing 2) Chlorocebus sabaeus
Analyze
Symbol: PCID2
Name: PCI domain containing 2
RGD ID: 18778327
Description: ENCODES a protein that exhibits double-stranded DNA binding (inferred); RNA binding (inferred); INVOLVED IN heterochromatin organization (ortholog); negative regulation of apoptotic process (ortholog); negative regulation of lymphoid progenitor cell differentiation (ortholog); ASSOCIATED WITH blood coagulation disease (ortholog); factor X deficiency (ortholog); hemorrhagic disease (ortholog); FOUND IN cytoplasm (ortholog); nuclear pore nuclear basket (ortholog); nucleus (ortholog)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: PCI domain-containing protein 2
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: ChlSab1.1 - Green Monkey 1.1 Assembly
Position:
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1391,163,158 - 91,212,450 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl391,177,463 - 91,211,735 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366604648,212,929 - 48,249,687 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


References
Additional References at PubMed
PMID:30032202  


Genomics

Comparative Map Data
PCID2
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1391,163,158 - 91,212,450 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl391,177,463 - 91,211,735 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366604648,212,929 - 48,249,687 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
PCID2
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh3813113,165,002 - 113,208,669 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl13113,177,536 - 113,208,715 (-)EnsemblGRCh38hg38GRCh38
GRCh3713113,831,850 - 113,862,983 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 3613112,879,927 - 112,910,984 (-)NCBINCBI36Build 36hg18NCBI36
Celera1394,658,168 - 94,689,275 (-)NCBICelera
Cytogenetic Map13q34NCBI
HuRef1394,270,740 - 94,301,913 (-)NCBIHuRef
CHM1_113113,800,717 - 113,831,888 (-)NCBICHM1_1
T2T-CHM13v2.013112,427,103 - 112,461,015 (-)NCBIT2T-CHM13v2.0
Pcid2
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39813,125,476 - 13,155,343 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl813,127,189 - 13,155,459 (-)EnsemblGRCm39 Ensembl
GRCm38813,075,476 - 13,105,343 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl813,077,189 - 13,105,459 (-)EnsemblGRCm38mm10GRCm38
MGSCv37813,077,525 - 13,105,343 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36813,077,167 - 13,105,382 (-)NCBIMGSCv36mm8
Celera813,244,463 - 13,272,258 (-)NCBICelera
Cytogenetic Map8A1.1NCBI
cM Map85.73NCBI
Pcid2
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81683,125,386 - 83,150,851 (+)NCBIGRCr8
mRatBN7.21676,423,245 - 76,448,712 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1676,423,245 - 76,448,712 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1681,703,795 - 81,729,260 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01685,156,372 - 85,181,837 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01680,405,044 - 80,431,334 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01681,757,582 - 81,783,047 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1681,756,971 - 81,783,047 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01681,242,949 - 81,268,414 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41681,280,427 - 81,305,892 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11681,279,932 - 81,305,288 (+)NCBI
Celera1674,229,279 - 74,254,744 (+)NCBICelera
Cytogenetic Map16q12.5NCBI
Pcid2
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_004955404618,092 - 639,704 (+)EnsemblChiLan1.0
ChiLan1.0NW_004955404618,092 - 639,424 (+)NCBIChiLan1.0ChiLan1.0
PCID2
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v214114,681,970 - 114,713,034 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan113113,369,041 - 113,400,323 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01394,319,699 - 94,350,763 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.113113,388,251 - 113,419,523 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl13113,388,251 - 113,419,251 (-)Ensemblpanpan1.1panPan2
PCID2
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12260,602,440 - 60,623,811 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2260,602,888 - 60,623,719 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2260,314,829 - 60,336,177 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.02261,228,565 - 61,250,676 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2261,228,122 - 61,309,216 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12260,726,462 - 60,747,819 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02260,728,651 - 60,750,011 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02260,760,103 - 60,781,453 (-)NCBIUU_Cfam_GSD_1.0
Pcid2
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024404945195,488,082 - 195,511,764 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_004936472446,712 - 465,039 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_004936472440,440 - 464,116 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
PCID2
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1178,541,318 - 78,556,733 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11178,541,278 - 78,556,784 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21186,178,780 - 86,194,261 (+)NCBISscrofa10.2Sscrofa10.2susScr3
Pcid2
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_004624793722,762 - 744,743 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_004624793722,743 - 744,824 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2


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

endocrine system hemolymphoid system nervous system
High
Medium 36 14 60
Low 6
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSCSAT00000015536   ⟹   ENSCSAP00000013474
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
ChlSab1.1 Ensembl391,177,463 - 91,211,735 (-)Ensembl
RefSeq Acc Id: XM_038007918   ⟹   XP_037863846
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
Vero_WHO_p1.0NW_02366604648,212,929 - 48,249,687 (-)NCBI
Protein Sequences
Protein RefSeqs XP_037863846 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSCSAP00000013474.1
Reference Protein Sequences
RefSeq Acc Id: ENSCSAP00000013474   ⟸   ENSCSAT00000015536
RefSeq Acc Id: XP_037863846   ⟸   XM_038007918


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSCSAG00000017441 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSCSAT00000015536.1 UniProtKB/TrEMBL
Gene3D-CATH 1.10.10.10 UniProtKB/TrEMBL
InterPro Csn12-like UniProtKB/TrEMBL
  PCI_dom UniProtKB/TrEMBL
  WH-like_DNA-bd_sf UniProtKB/TrEMBL
NCBI Gene PCID2 ENTREZGENE
PANTHER PCI DOMAIN-CONTAINING PROTEIN 2 UniProtKB/TrEMBL
  PTHR12732 UniProtKB/TrEMBL
Pfam PCI UniProtKB/TrEMBL
PROSITE PCI UniProtKB/TrEMBL
SMART PAM UniProtKB/TrEMBL
UniProt A0A0D9RXY5_CHLSB UniProtKB/TrEMBL