Pcbd2 (pterin 4 alpha carbinolamine dehydratase/dimerization cofactor of hepatocyte nuclear factor 1 alpha (TCF1) 2) - Rat Genome Database

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Gene: Pcbd2 (pterin 4 alpha carbinolamine dehydratase/dimerization cofactor of hepatocyte nuclear factor 1 alpha (TCF1) 2) Mus musculus
Analyze
Symbol: Pcbd2
Name: pterin 4 alpha carbinolamine dehydratase/dimerization cofactor of hepatocyte nuclear factor 1 alpha (TCF1) 2
RGD ID: 1615841
MGI Page MGI
Description: Enables identical protein binding activity and phenylalanine 4-monooxygenase activity. Predicted to be involved in positive regulation of DNA-templated transcription. Located in nucleus. Is expressed in bladder; central nervous system; male associated reproductive structure; testis; and urethra of male. Orthologous to human PCBD2 (pterin-4 alpha-carbinolamine dehydratase 2).
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: 2700061N24Rik; 4-alpha-hydroxy-tetrahydropterin dehydratase 2; Dcoh; dcoH-like protein DCoHm; Dcoh2; Dcohm; dimerization cofactor of hepatocyte nuclear factor 1 (HNF1) from muscle; dimerization cofactor of hepatocyte nuclear factor 1 from muscle; HNF-1-alpha dimerization cofactor; PHS 2; pterin-4-alpha-carbinolamine dehydratase 2
RGD Orthologs
Human
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: GRCm39 - Mouse Genome Assembly GRCm39
Position:
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391355,874,957 - 55,924,643 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1355,875,181 - 55,924,643 (+)EnsemblGRCm39 Ensembl
GRCm381355,727,097 - 55,776,830 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1355,727,368 - 55,776,830 (+)EnsemblGRCm38mm10GRCm38
MGSCv371355,828,729 - 55,878,191 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361355,736,990 - 55,786,452 (+)NCBIMGSCv36mm8
Celera1356,782,245 - 56,831,727 (+)NCBICelera
Cytogenetic Map13B1NCBI
cM Map1330.06NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component
mitochondrion  (HDA)
nucleus  (IPI)

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:8889548   PMID:10349636   PMID:11042159   PMID:11076861   PMID:11217851   PMID:12466851   PMID:12477932   PMID:14610273   PMID:15182178   PMID:15489334   PMID:15618518   PMID:16141072  
PMID:16141073   PMID:18287559   PMID:18614015   PMID:21873635   PMID:24389307   PMID:30499775   PMID:32325033  


Genomics

Comparative Map Data
Pcbd2
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391355,874,957 - 55,924,643 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1355,875,181 - 55,924,643 (+)EnsemblGRCm39 Ensembl
GRCm381355,727,097 - 55,776,830 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1355,727,368 - 55,776,830 (+)EnsemblGRCm38mm10GRCm38
MGSCv371355,828,729 - 55,878,191 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361355,736,990 - 55,786,452 (+)NCBIMGSCv36mm8
Celera1356,782,245 - 56,831,727 (+)NCBICelera
Cytogenetic Map13B1NCBI
cM Map1330.06NCBI
PCBD2
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh385134,905,131 - 134,962,644 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl5134,905,120 - 135,007,959 (+)EnsemblGRCh38hg38GRCh38
GRCh375134,240,821 - 134,298,334 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 365134,268,709 - 134,326,235 (+)NCBINCBI36Build 36hg18NCBI36
Build 345134,268,708 - 134,333,243NCBI
Celera5130,369,123 - 130,422,077 (+)NCBICelera
Cytogenetic Map5q31.1NCBI
HuRef5129,426,903 - 129,486,276 (+)NCBIHuRef
CHM1_15133,673,459 - 133,730,983 (+)NCBICHM1_1
T2T-CHM13v2.05135,432,093 - 135,489,611 (+)NCBIT2T-CHM13v2.0
Pcbd2
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8178,850,349 - 8,902,420 (-)NCBIGRCr8
mRatBN7.2178,845,161 - 8,896,343 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl178,845,084 - 8,910,539 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx178,860,830 - 8,911,884 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01710,390,105 - 10,441,472 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0178,857,211 - 8,908,265 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0178,929,675 - 8,980,712 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl178,929,810 - 8,980,571 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01711,094,438 - 11,145,446 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Celera178,927,317 - 8,977,982 (-)NCBICelera
Cytogenetic Map17p14NCBI
Pcbd2
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495540830,090,808 - 30,137,964 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495540830,090,808 - 30,137,894 (+)NCBIChiLan1.0ChiLan1.0
PCBD2
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v24130,199,520 - 130,260,300 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan15128,338,958 - 128,399,860 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v05130,303,900 - 130,364,899 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.15136,446,464 - 136,497,528 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl5136,446,730 - 136,497,011 (+)Ensemblpanpan1.1panPan2
PCBD2
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11122,998,005 - 23,015,572 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1122,951,201 - 23,015,572 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1121,711,021 - 21,765,150 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.01123,768,358 - 23,822,149 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1123,768,124 - 23,822,149 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11122,467,615 - 22,521,350 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01122,333,522 - 22,387,288 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01122,976,012 - 23,030,046 (+)NCBIUU_Cfam_GSD_1.0
Pcbd2
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024407213123,089,793 - 123,136,422 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365972,119,136 - 2,161,379 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049365972,113,428 - 2,161,329 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
PCBD2
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.12137,082,920 - 137,135,175 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
PCBD2
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12337,689,451 - 37,737,997 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl2337,689,506 - 37,738,161 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366603440,178,570 - 40,227,682 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Pcbd2
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462473312,113,915 - 12,162,222 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462473312,113,915 - 12,162,224 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Pcbd2
1676 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:144
Count of miRNA genes:72
Interacting mature miRNAs:75
Transcripts:ENSMUST00000021958, ENSMUST00000124968
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 (GRCm39)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
26884393Humsd7_mhumerus midshaft diameter 7, 16 week (mouse)13395000076048119Mouse
1301015Sysbp2_msystolic blood pressure 2 (mouse)Not determined132047761259821605Mouse
4142147Mvwf4_mmodifier of von Willebrand factor 4 (mouse)Not determined20477612112898424Mouse
4142009Pregq3_mpregnancy QTL 3 (mouse)Not determined132061551272385189Mouse
4142489Ath25_matherosclerosis 25 (mouse)Not determined2583652959836529Mouse
10401111Pgia40_mproteoglycan induced arthritis 40 (mouse)Not determined132791846961918560Mouse
1300710Pcd4ts2_mp-glycoprotein positive CD4 T cell subset 2 (mouse)Not determined132821044262210544Mouse
1357802Vtbt15_mvertebral trabecular bone trait 15 (mouse)Not determined132821737962217515Mouse
10045621Heal21_mwound healing/regeneration 21 (mouse)Not determined132821737962217515Mouse
10755533Chol18_mcholesterol 18 (mouse)133096946764969467Mouse
10755517Chol15_mcholesterol 15 (mouse)133096946764969467Mouse
12738439Twq4_mtestis weight QTL 4 (mouse)133112911065129110Mouse
14696729Kidlq2_mkidney weight, left QTL 2 (mouse)133134473665344736Mouse
1301299Sluc23_msusceptibility to lung cancer 23 (mouse)Not determined133492194368922081Mouse
10412235Scgq5_mspontaneous crescentic glomerulonephritis QTL 5 (mouse)Not determined133606090896239162Mouse
1357587Pfat3_mpredicted fat percentage 3 (mouse)Not determined133610153070101640Mouse
1301734Acsns2_mAngiostrongylus costaricensis nematode susceptibility 2 (mouse)Not determined133610153070101640Mouse
1300561Heal7_mwound healing/regeneration 7 (mouse)Not determined133614482070144904Mouse
1300862Cfbw5_mcystic fibrosis body weight 5 (mouse)Not determined133872035872720517Mouse
1300985Bmd13_mbone mineral density 13 (mouse)Not determined133962924973629397Mouse
1302157Bwem2_mbody weight day 30 males 2 (mouse)Not determined133962924973629397Mouse
1301801Cpfd5_mcerebellum pattern fissures (mouse)Not determined133962924973629397Mouse
15039353Nmrs35_mNAFLD-associated magnetic resonance shift 35 (mouse)134058825374588253Mouse
1300668Pas10_mpulmonary adenoma susceptibility 10 (mouse)Not determined134148904275489158Mouse
4142331Bxs6_mBXSB/MpJ autoimmune nephritis 6 (mouse)Not determined4521044283744746Mouse
10412109Bxs7_mBXSB/MpJ autoimmune nephritis 7 (mouse)Not determined134521044283744746Mouse
26884396Humsd4_mhumerus midshaft diameter 4, 10 week (mouse)134785347673148119Mouse
4142372Moo2_mmodifier of Odc2 (mouse)Not determinedX5031841184318559Mouse
1301666Eae13_msusceptibility to experimental allergic encephalomyelitis 13 (mouse)Not determined135031841184318559Mouse
1300573Elsgp2_melevated serum gp70 2 (mouse)Not determined135061682884617027Mouse
14746975Manh74_mmandible shape 74 (mouse)135247726986477269Mouse
1302073Pgct1_mprimordial germ cell tumor locus 1 (mouse)Not determined135382078387820897Mouse
1357563Bmch6_mbone mechanical trait 6 (mouse)Not determined135538498089385140Mouse
4142314Tailaq3_mtail length adjusted QTL 3 (mouse)Not determined55720354112431103Mouse
4140959W10q17_mweight 10 weeks QTL 17 (mouse)Not determined55720354112431103Mouse
4141992W6q16_mweight 6 weeks QTL 16 (mouse)Not determined55720354112431103Mouse
4142241Tailq3_mtail length QTL 3 (mouse)Not determined55720354112431103Mouse

Markers in Region
AI854086  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm381355,725,816 - 55,725,959UniSTSGRCm38
MGSCv371355,827,177 - 55,827,320UniSTSGRCm37
Celera1356,780,692 - 56,780,835UniSTS
Cytogenetic Map13B2UniSTS
Cytogenetic Map13B1UniSTS
Whitehead/MRC_RH13580.56UniSTS


Expression


Sequence


Reference Sequences
RefSeq Acc Id: ENSMUST00000021958   ⟹   ENSMUSP00000021958
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1355,875,181 - 55,924,641 (+)Ensembl
GRCm38.p6 Ensembl1355,727,368 - 55,776,828 (+)Ensembl
RefSeq Acc Id: ENSMUST00000124968   ⟹   ENSMUSP00000115392
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1355,875,181 - 55,924,643 (+)Ensembl
GRCm38.p6 Ensembl1355,727,368 - 55,776,830 (+)Ensembl
RefSeq Acc Id: NM_028281   ⟹   NP_082557
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391355,875,181 - 55,924,643 (+)NCBI
GRCm381355,727,368 - 55,776,830 (+)NCBI
MGSCv371355,828,729 - 55,878,191 (+)RGD
Celera1356,782,245 - 56,831,727 (+)RGD
cM Map13 ENTREZGENE
Sequence:
RefSeq Acc Id: XM_006517398   ⟹   XP_006517461
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391355,874,991 - 55,924,643 (+)NCBI
GRCm381355,727,144 - 55,776,830 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006517399   ⟹   XP_006517462
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391355,874,957 - 55,888,393 (+)NCBI
GRCm381355,727,144 - 55,740,580 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006517401   ⟹   XP_006517464
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391355,874,971 - 55,888,393 (+)NCBI
GRCm381355,727,144 - 55,740,580 (+)NCBI
Sequence:
RefSeq Acc Id: XM_011244564   ⟹   XP_011242866
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391355,874,983 - 55,924,643 (+)NCBI
GRCm381355,727,144 - 55,776,830 (+)NCBI
Sequence:
RefSeq Acc Id: XM_030247422   ⟹   XP_030103282
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391355,875,180 - 55,924,643 (+)NCBI
GRCm381355,727,097 - 55,776,830 (+)NCBI
Sequence:
Reference Protein Sequences
RefSeq Acc Id: NP_082557   ⟸   NM_028281
- UniProtKB: Q9CZL5 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_006517462   ⟸   XM_006517399
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: XP_006517464   ⟸   XM_006517401
- Peptide Label: isoform X3
- Sequence:
RefSeq Acc Id: XP_006517461   ⟸   XM_006517398
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_011242866   ⟸   XM_011244564
- Peptide Label: isoform X4
- Sequence:
RefSeq Acc Id: XP_030103282   ⟸   XM_030247422
- Peptide Label: isoform X5
RefSeq Acc Id: ENSMUSP00000115392   ⟸   ENSMUST00000124968
RefSeq Acc Id: ENSMUSP00000021958   ⟸   ENSMUST00000021958

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q9CZL5-F1-model_v2 AlphaFold Q9CZL5 1-136 view protein structure

Promoters
RGD ID:8680480
Promoter ID:EPDNEW_M18271
Type:multiple initiation site
Name:Pcbd2_1
Description:Mus musculus pterin 4 alpha carbinolamine dehydratase/dimerizationcofactor of hepatocyte nuclear factor 1 alpha 2 , mRNA.
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm381355,727,362 - 55,727,422EPDNEW
RGD ID:6824223
Promoter ID:MM_KWN:14266
Type:CpG-Island
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:3T3L1_Day0,   3T3L1_Day2,   3T3L1_Day3,   3T3L1_Day4,   3T3L1_Day6,   BoneMarrow_0Hour,   BoneMarrow_2Hour,   BoneMarrow_4Hour,   Brain,   ES_Cell,   Kidney,   Liver,   Lung,   MEF_B4,   MEF_B6,   Spleen
Transcripts:NM_028281
Position:
Mouse AssemblyChrPosition (strand)Source
MGSCv361355,828,271 - 55,829,217 (+)MPROMDB

Additional Information

Database Acc Id Source(s)
AGR Gene MGI:1919812 AgrOrtholog
Ensembl Genes ENSMUSG00000021496 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Ensembl Transcript ENSMUST00000021958 ENTREZGENE
  ENSMUST00000021958.6 UniProtKB/Swiss-Prot
  ENSMUST00000124968.8 UniProtKB/TrEMBL
Gene3D-CATH 3.30.1360.20 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
InterPro PCD_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Pterin_deHydtase UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report mmu:72562 UniProtKB/Swiss-Prot
MGD MGI:1919812 ENTREZGENE
NCBI Gene 72562 ENTREZGENE
PANTHER PTERIN-4-ALPHA-CARBINOLAMINE DEHYDRATASE 2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PTHR12599 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam Pterin_4a UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Pcbd2 PhenoGen
Superfamily-SCOP SSF55248 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A0A0R4J1R7_MOUSE UniProtKB/TrEMBL
  PHS2_MOUSE UniProtKB/Swiss-Prot, ENTREZGENE