Pdcd7 (programmed cell death 7) - Rat Genome Database

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Gene: Pdcd7 (programmed cell death 7) Mus musculus
Analyze
Symbol: Pdcd7
Name: programmed cell death 7
RGD ID: 1319040
MGI Page MGI
Description: Involved in response to glucocorticoid. Acts upstream of or within positive regulation of T cell apoptotic process and positive regulation of apoptotic signaling pathway. Predicted to be located in nucleus. Predicted to be part of U12-type spliceosomal complex. Is expressed in several structures, including brain ventricular layer; chondrocranium; jaw; submandibular gland primordium; and vibrissa. Orthologous to human PDCD7 (programmed cell death 7).
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: C80112; ES1; ES18; programmed cell death protein 7
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
GRCm39965,253,350 - 65,266,925 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl965,253,386 - 65,266,925 (+)EnsemblGRCm39 Ensembl
GRCm38965,346,068 - 65,359,643 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl965,346,104 - 65,359,643 (+)EnsemblGRCm38mm10GRCm38
MGSCv37965,193,875 - 65,207,450 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36965,144,074 - 65,157,649 (+)NCBIMGSCv36mm8
Celera962,576,093 - 62,589,612 (+)NCBICelera
Cytogenetic Map9CNCBI
cM Map935.25NCBI
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

Cellular Component

Molecular Function

Phenotype Annotations     Click to see Annotation Detail View
References

References - curated
# Reference Title Reference Citation
1. MGDs mouse GO annotations MGD data from the GO Consortium
2. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:8889548   PMID:10037816   PMID:10087507   PMID:10349636   PMID:10725249   PMID:11042159   PMID:11076861   PMID:11217851   PMID:12466851   PMID:12477932   PMID:14610273   PMID:15489334  
PMID:16141072   PMID:16141073   PMID:17015433   PMID:18799693   PMID:20059953   PMID:21267068   PMID:21677750   PMID:21873635   PMID:30196744  


Genomics

Comparative Map Data
Pdcd7
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39965,253,350 - 65,266,925 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl965,253,386 - 65,266,925 (+)EnsemblGRCm39 Ensembl
GRCm38965,346,068 - 65,359,643 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl965,346,104 - 65,359,643 (+)EnsemblGRCm38mm10GRCm38
MGSCv37965,193,875 - 65,207,450 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36965,144,074 - 65,157,649 (+)NCBIMGSCv36mm8
Celera962,576,093 - 62,589,612 (+)NCBICelera
Cytogenetic Map9CNCBI
cM Map935.25NCBI
PDCD7
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381565,117,379 - 65,133,808 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1565,117,379 - 65,133,808 (-)EnsemblGRCh38hg38GRCh38
GRCh371565,409,717 - 65,426,146 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361563,196,770 - 63,213,227 (-)NCBINCBI36Build 36hg18NCBI36
Build 341563,196,770 - 63,213,227NCBI
Celera1542,287,881 - 42,304,338 (-)NCBICelera
Cytogenetic Map15q22.31NCBI
HuRef1542,234,361 - 42,250,816 (-)NCBIHuRef
CHM1_11565,529,509 - 65,545,967 (-)NCBICHM1_1
T2T-CHM13v2.01562,926,802 - 62,943,229 (-)NCBIT2T-CHM13v2.0
Pdcd7
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8874,757,768 - 74,772,495 (+)NCBIGRCr8
mRatBN7.2865,862,606 - 65,877,333 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl865,862,387 - 65,877,333 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx871,375,034 - 71,389,758 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0869,648,040 - 69,662,764 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0867,517,585 - 67,532,315 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0870,860,671 - 70,875,471 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl870,860,671 - 70,875,471 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0870,553,737 - 70,568,103 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4869,590,408 - 69,605,671 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1869,609,536 - 69,624,725 (+)NCBI
Celera865,260,354 - 65,275,054 (+)NCBICelera
Cytogenetic Map8q24NCBI
Pdcd7
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495545010,294,276 - 10,306,367 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495545010,294,184 - 10,307,234 (+)NCBIChiLan1.0ChiLan1.0
PDCD7
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21654,349,202 - 54,380,150 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11558,520,781 - 58,551,740 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01544,057,667 - 44,073,812 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11562,341,731 - 62,357,969 (-)NCBIpanpan1.1PanPan1.1panPan2
PDCD7
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.13029,498,290 - 29,510,991 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl3029,475,498 - 29,510,575 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha3029,428,204 - 29,441,228 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.03029,688,009 - 29,700,874 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl3029,661,429 - 29,701,072 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.13029,620,077 - 29,633,127 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.03029,682,120 - 29,695,027 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.03029,922,911 - 29,935,386 (-)NCBIUU_Cfam_GSD_1.0
Pdcd7
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024408640107,585,568 - 107,595,973 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493647125,434,771 - 25,444,852 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_00493647125,432,956 - 25,444,036 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
PDCD7
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1163,156,925 - 163,170,228 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11163,157,881 - 163,172,528 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21180,681,362 - 180,695,881 (-)NCBISscrofa10.2Sscrofa10.2susScr3
PDCD7
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12618,457,101 - 18,470,020 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl2618,457,166 - 18,469,525 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_023666048122,959,057 - 122,976,881 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Pdcd7
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247817,368,782 - 7,383,435 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046247817,369,305 - 7,383,437 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Pdcd7
537 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:310
Count of miRNA genes:237
Interacting mature miRNAs:264
Transcripts:ENSMUST00000048184
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
13208563Bmiq8_mbody mass index QTL 8 (mouse)92491129668907282Mouse
1302180Actd4_mactivity-distance traveled 4 (mouse)Not determined93243456366434857Mouse
4141148Cq5_mcholesterol QTL 5 (mouse)Not determined93245242166452546Mouse
1301692Hts_mhypothermia sensitivity (mouse)Not determined93251117266511421Mouse
4141323Ptnu3_mproteinuria 3 (mouse)Not determined93288970266889836Mouse
1357709Si5lq3_mserum IGFBP-5 level QTL 3 (mouse)Not determined93311102567111140Mouse
1558872Ibdq1_minflammatory bowel disease QTL 1 (mouse)Not determined93397884073439255Mouse
1301252Etohc3_methanol consumption 3 (mouse)Not determined93503447869034599Mouse
1301972Cocrb8_mcocaine related behavior 8 (mouse)Not determined93503447869034599Mouse
1558968Tbdr1_mbody temperature response to dietary restriction, QTL 1 (mouse)Not determined93503447869034599Mouse
4142042Alpq3_malcohol preference QTL 3 (mouse)Not determined93730619798701707Mouse
10043971Obq32_mobesity QTL 32 (mouse)Not determined93781952871819528Mouse
12790986Pcho9_mplasma cholesterol 9 (mouse)93809957572099575Mouse
12790992Arlsq1_maortic root lesion size QTL 1 (mouse)93809957572099575Mouse
12791002Arlsq2_maortic root lesion size QTL 2 (mouse)93809957572099575Mouse
12738449Spcq2_msperm count QTL 2 (mouse)93939988573399885Mouse
4141071Ath29_matherosclerosis 29 (mouse)Not determined94041959474607925Mouse
1301702Brm1_mbrachyury modifier 1 (mouse)Not determined94080504774805204Mouse
1301558Stheal8_msoft tissue heal 8 (mouse)Not determined94348071477480860Mouse
10045639Heal28_mwound healing/regeneration 28 (mouse)Not determined94348071477480860Mouse
1301435Trigq1_mtriglyceride QTL 1 (mouse)Not determined94442817478428262Mouse
4141572Ntta3_mneurotensin transcript abundance 3 (mouse)Not determined4659767165831177Mouse
1300563Pgia5_mproteoglycan induced arthritis 5 (mouse)Not determined94883105682831177Mouse
1300716Cd4ts4_mCD4 T cell subset 4 (mouse)Not determined94883105682831177Mouse
1301049El4_mepilepsy 4 (mouse)Not determined94942029867151448Mouse
4141224Dxmod_mdoxorubicin nephropathy modifier (mouse)Not determined49452421101406120Mouse
14746993Manh66_mmandible shape 66 (mouse)94981404883814048Mouse
1301184Bdln4_mbody length 4 (mouse)Not determined95015132084151448Mouse
1301241Renf1_mrenal failure 1 (mouse)Not determined95203447899792481Mouse
13525008Hrtiq1_mheart rate time index, QTL 1 (mouse)95242609868556008Mouse
12790990Tgl7_mtriglyceride 7 (mouse)95455996088559960Mouse
10043877Adip21_madiposity 21 (mouse)Not determined95643910890439255Mouse
1301965Vmbic5_mventral midbrain iron content 5 (mouse)Not determined95759149265831177Mouse
1301549Bbaa9_mB.burgdorferi-associated arthritis 9 (mouse)Not determined95780504771481754Mouse
4141676Neogq1_mneonatal growth QTL 1 (mouse)Not determined95780504786121973Mouse
13525007Lfhrvq1_mlow frequency time index heart rate varaiblity, QTL 1 (mouse)95878431868556008Mouse
1301803Stheal9_msoft tissue heal 9 (mouse)Not determined95902438793024534Mouse
1301172Fembrs6_mfemur breaking strength 6 (mouse)Not determined95902438793024534Mouse
1301456Adip5_madiposity 5 (mouse)Not determined95936994693370128Mouse
1300848Skull13_mskull morphology 13 (mouse)Not determined95936994693370128Mouse
5491195Mobq8_mmultigenic obesity QTL 8 (mouse)Not determined95936994693370128Mouse
13207569Tcq13_mtotal cholesterol QTL 13 (mouse)959897283109089068Mouse
1301611Lrnx3_mlearning contextual 3 (mouse)Not determined96214976796149881Mouse
4141833W10q13_mweight 10 weeks QTL 13 (mouse)Not determined63239711120191934Mouse
4141545Tailaq2_mtail length adjusted QTL 2 (mouse)Not determined63239711120191934Mouse
1357635Splq4_mspleen weight QTL 4 (mouse)Not determined963239711120191934Mouse
11081165Psl6_mpromotion susceptibility QTL 6 (mouse)96504119195522808Mouse

Markers in Region
RH126804  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm38965,359,373 - 65,359,612UniSTSGRCm38
MGSCv37965,207,180 - 65,207,419UniSTSGRCm37
Celera962,589,342 - 62,589,581UniSTS
Cytogenetic Map9DUniSTS
Cytogenetic Map9CUniSTS
Whitehead/MRC_RH9633.88UniSTS


Expression


Sequence


Reference Sequences
RefSeq Acc Id: ENSMUST00000048184   ⟹   ENSMUSP00000035515
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl965,253,386 - 65,266,925 (+)Ensembl
GRCm38.p6 Ensembl965,346,104 - 65,359,643 (+)Ensembl
RefSeq Acc Id: ENSMUST00000214433   ⟹   ENSMUSP00000148947
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl965,253,553 - 65,265,960 (+)Ensembl
GRCm38.p6 Ensembl965,346,271 - 65,358,678 (+)Ensembl
RefSeq Acc Id: ENSMUST00000215470   ⟹   ENSMUSP00000151141
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl965,253,936 - 65,264,718 (+)Ensembl
GRCm38.p6 Ensembl965,346,654 - 65,357,436 (+)Ensembl
RefSeq Acc Id: NM_016688   ⟹   NP_057897
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39965,253,350 - 65,266,925 (+)NCBI
GRCm38965,346,068 - 65,359,643 (+)ENTREZGENE
MGSCv37965,193,875 - 65,207,450 (+)RGD
Celera962,576,093 - 62,589,612 (+)RGD
cM Map9 ENTREZGENE
Sequence:
Protein Sequences
Protein RefSeqs NP_057897 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAD20240 (Get FASTA)   NCBI Sequence Viewer  
  AAH22772 (Get FASTA)   NCBI Sequence Viewer  
  BAE33014 (Get FASTA)   NCBI Sequence Viewer  
  EDL26088 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSMUSP00000035515
  ENSMUSP00000035515.3
  ENSMUSP00000148947.2
  ENSMUSP00000151141.2
GenBank Protein Q9WTY1 (Get FASTA)   NCBI Sequence Viewer  
Reference Protein Sequences
RefSeq Acc Id: NP_057897   ⟸   NM_016688
- UniProtKB: Q9WTY1 (UniProtKB/Swiss-Prot),   Q8R5D9 (UniProtKB/Swiss-Prot),   Q3U2X6 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSMUSP00000035515   ⟸   ENSMUST00000048184
RefSeq Acc Id: ENSMUSP00000151141   ⟸   ENSMUST00000215470
RefSeq Acc Id: ENSMUSP00000148947   ⟸   ENSMUST00000214433

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q9WTY1-F1-model_v2 AlphaFold Q9WTY1 1-482 view protein structure

Promoters
RGD ID:6844921
Promoter ID:MM_KWN:57765
Type:CpG-Island
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:3T3L1_Day0,   3T3L1_Day1,   3T3L1_Day2,   3T3L1_Day3,   3T3L1_Day4,   BoneMarrow_0Hour,   BoneMarrow_2Hour,   BoneMarrow_4Hour,   Brain,   ES_Cell,   Kidney,   Liver,   Lung,   MEF_B4,   MEF_B6,   Spleen
Transcripts:NM_016688
Position:
Mouse AssemblyChrPosition (strand)Source
MGSCv36965,193,776 - 65,194,772 (+)MPROMDB
RGD ID:8669982
Promoter ID:EPDNEW_M13021
Type:initiation region
Name:Pdcd7_1
Description:Mus musculus programmed cell death 7 , 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
GRCm38965,346,104 - 65,346,164EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene MGI:1859170 AgrOrtholog
Ensembl Genes ENSMUSG00000041837 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSMUST00000048184 ENTREZGENE
  ENSMUST00000048184.4 UniProtKB/TrEMBL
  ENSMUST00000214433.2 UniProtKB/TrEMBL
  ENSMUST00000215470.2 UniProtKB/TrEMBL
InterPro PDCD7 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report mmu:50996 UniProtKB/TrEMBL
MGD MGI:1859170 ENTREZGENE
NCBI Gene 50996 ENTREZGENE
PANTHER PROGRAMMED CELL DEATH PROTEIN 7 UniProtKB/Swiss-Prot
  PROGRAMMED CELL DEATH PROTEIN 7 UniProtKB/Swiss-Prot
  PROGRAMMED CELL DEATH PROTEIN 7 UniProtKB/TrEMBL
  PROGRAMMED CELL DEATH PROTEIN 7 UniProtKB/TrEMBL
Pfam PDCD7 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Pdcd7 PhenoGen
UniProt A0A1L1SQ83_MOUSE UniProtKB/TrEMBL
  A0A1L1SVC2_MOUSE UniProtKB/TrEMBL
  PDCD7_MOUSE UniProtKB/Swiss-Prot
  Q3U2X6 ENTREZGENE, UniProtKB/TrEMBL
  Q8R5D9 ENTREZGENE
  Q9WTY1 ENTREZGENE
UniProt Secondary Q8R5D9 UniProtKB/Swiss-Prot