PDCD11 (programmed cell death 11) - Rat Genome Database

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Gene: PDCD11 (programmed cell death 11) Canis lupus familiaris
Analyze
Symbol: PDCD11
Name: programmed cell death 11
RGD ID: 12421525
Description: ENCODES a protein that exhibits NF-kappaB binding (inferred); nucleic acid binding (inferred); RNA binding (inferred); INVOLVED IN rRNA processing (inferred); PARTICIPATES IN ribosome biogenesis pathway; ASSOCIATED WITH genetic disease (ortholog); FOUND IN cytosol (inferred); nucleolus (inferred); nucleus (inferred)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: protein RRP5 homolog
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: CanFam3.1 - Dog CanFam3.1 Assembly
Position:
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12815,767,936 - 15,812,285 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2815,769,845 - 15,812,279 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2815,939,911 - 15,984,168 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.02816,244,175 - 16,288,442 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2816,244,252 - 16,288,440 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12815,793,243 - 15,837,440 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02815,820,958 - 15,865,275 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02815,959,630 - 16,003,888 (+)NCBIUU_Cfam_GSD_1.0
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

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
References
Additional References at PubMed
PMID:22301074   PMID:30032202  


Genomics

Comparative Map Data
PDCD11
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12815,767,936 - 15,812,285 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2815,769,845 - 15,812,279 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2815,939,911 - 15,984,168 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.02816,244,175 - 16,288,442 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2816,244,252 - 16,288,440 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12815,793,243 - 15,837,440 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02815,820,958 - 15,865,275 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02815,959,630 - 16,003,888 (+)NCBIUU_Cfam_GSD_1.0
PDCD11
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh3810103,396,626 - 103,446,294 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl10103,396,626 - 103,446,294 (+)EnsemblGRCh38hg38GRCh38
GRCh3710105,156,383 - 105,206,051 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 3610105,146,402 - 105,196,009 (+)NCBINCBI36Build 36hg18NCBI36
Build 3410105,146,448 - 105,195,463NCBI
Celera1098,896,345 - 98,945,951 (+)NCBICelera
Cytogenetic Map10q24.33NCBI
HuRef1098,787,205 - 98,836,814 (+)NCBIHuRef
CHM1_110105,440,531 - 105,490,136 (+)NCBICHM1_1
T2T-CHM13v2.010104,283,827 - 104,333,600 (+)NCBIT2T-CHM13v2.0
Pdcd11
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391947,079,183 - 47,119,585 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1947,079,207 - 47,120,304 (+)EnsemblGRCm39 Ensembl
GRCm381947,090,735 - 47,131,146 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1947,090,768 - 47,131,865 (+)EnsemblGRCm38mm10GRCm38
MGSCv371947,165,256 - 47,205,636 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361947,144,077 - 47,184,457 (+)NCBIMGSCv36mm8
Celera1947,859,811 - 47,900,415 (+)NCBICelera
Cytogenetic Map19C3NCBI
cM Map1939.24NCBI
Pdcd11
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81255,922,198 - 255,963,336 (+)NCBIGRCr8
mRatBN7.21245,980,840 - 246,021,999 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1245,980,880 - 246,021,999 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1254,107,190 - 254,148,728 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01260,800,488 - 260,842,289 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01253,449,999 - 253,490,785 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01266,866,931 - 266,908,042 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1266,866,931 - 266,908,042 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01274,297,342 - 274,338,453 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41252,413,500 - 252,454,620 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11252,679,744 - 252,718,472 (+)NCBI
Celera1241,752,536 - 241,793,608 (+)NCBICelera
Cytogenetic Map1q54NCBI
Pdcd11
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554857,112,457 - 7,150,731 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049554857,110,704 - 7,152,301 (-)NCBIChiLan1.0ChiLan1.0
PDCD11
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v28115,281,089 - 115,330,352 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan110115,286,418 - 115,335,681 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01099,994,509 - 100,043,784 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.110103,455,649 - 103,504,784 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl10103,455,649 - 103,504,784 (+)Ensemblpanpan1.1panPan2
Pdcd11
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440721331,027,757 - 31,073,135 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049366002,631,940 - 2,673,379 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049366002,631,520 - 2,676,315 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
PDCD11
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl14114,327,625 - 114,379,179 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.114114,327,583 - 114,382,002 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
PDCD11
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1996,442,214 - 96,493,320 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl996,442,237 - 96,493,318 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366604857,557,983 - 57,609,570 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Pdcd11
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046248312,634,095 - 2,673,652 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046248312,633,132 - 2,673,750 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in PDCD11
488 total Variants

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

alimentary part of gastrointestinal system circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system reproductive system respiratory system adipose tissue
High
Medium 14 3 5 6 8
Low 5 5 8 6 3 6 1 6 6 8 2 6
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSCAFT00000016578   ⟹   ENSCAFP00000015340
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1 Ensembl2815,769,845 - 15,812,279 (+)Ensembl
RefSeq Acc Id: ENSCAFT00000070847   ⟹   ENSCAFP00000044571
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1 Ensembl2815,769,845 - 15,812,279 (+)Ensembl
RefSeq Acc Id: ENSCAFT00000071938   ⟹   ENSCAFP00000062712
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1 Ensembl2815,769,845 - 15,812,279 (+)Ensembl
RefSeq Acc Id: ENSCAFT00000075557   ⟹   ENSCAFP00000052125
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1 Ensembl2815,769,845 - 15,812,279 (+)Ensembl
RefSeq Acc Id: ENSCAFT00000088663   ⟹   ENSCAFP00000063461
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1 Ensembl2815,769,845 - 15,812,279 (+)Ensembl
RefSeq Acc Id: ENSCAFT00000089941   ⟹   ENSCAFP00000062145
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1 Ensembl2815,769,845 - 15,812,279 (+)Ensembl
RefSeq Acc Id: ENSCAFT00000091905   ⟹   ENSCAFP00000051621
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1 Ensembl2815,769,845 - 15,812,279 (+)Ensembl
RefSeq Acc Id: ENSCAFT00845048345   ⟹   ENSCAFP00845037931
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.0 Ensembl2816,244,252 - 16,288,440 (+)Ensembl
RefSeq Acc Id: ENSCAFT00845048461   ⟹   ENSCAFP00845038017
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.0 Ensembl2816,244,252 - 16,288,440 (+)Ensembl
RefSeq Acc Id: ENSCAFT00845048655   ⟹   ENSCAFP00845038168
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.0 Ensembl2816,244,252 - 16,288,440 (+)Ensembl
RefSeq Acc Id: XM_038440451   ⟹   XP_038296379
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.02816,244,175 - 16,288,442 (+)NCBI
RefSeq Acc Id: XM_038440452   ⟹   XP_038296380
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.02816,244,175 - 16,288,442 (+)NCBI
RefSeq Acc Id: XM_038460701   ⟹   XP_038316629
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
Dog10K_Boxer_Tasha2815,939,911 - 15,984,168 (+)NCBI
RefSeq Acc Id: XM_038515081   ⟹   XP_038371009
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UMICH_Zoey_3.12815,793,243 - 15,837,440 (+)NCBI
RefSeq Acc Id: XM_038578678   ⟹   XP_038434606
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UU_Cfam_GSD_1.02815,959,630 - 16,003,888 (+)NCBI
RefSeq Acc Id: XM_038578679   ⟹   XP_038434607
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UU_Cfam_GSD_1.02815,959,630 - 16,003,888 (+)NCBI
RefSeq Acc Id: XM_038642861   ⟹   XP_038498789
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UNSW_CanFamBas_1.02815,820,958 - 15,865,275 (+)NCBI
RefSeq Acc Id: XM_038642862   ⟹   XP_038498790
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UNSW_CanFamBas_1.02815,820,958 - 15,865,275 (+)NCBI
RefSeq Acc Id: XM_535003   ⟹   XP_535003
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.12815,767,936 - 15,812,285 (+)NCBI
Dog10K_Boxer_Tasha2815,939,911 - 15,984,168 (+)NCBI
Sequence:
Reference Protein Sequences
RefSeq Acc Id: XP_535003   ⟸   XM_535003
- Peptide Label: isoform X1
- UniProtKB: A0A8I3QDQ2 (UniProtKB/TrEMBL),   A0A8P0SFM0 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSCAFP00000063461   ⟸   ENSCAFT00000088663
RefSeq Acc Id: ENSCAFP00000044571   ⟸   ENSCAFT00000070847
RefSeq Acc Id: ENSCAFP00000051621   ⟸   ENSCAFT00000091905
RefSeq Acc Id: ENSCAFP00000015340   ⟸   ENSCAFT00000016578
RefSeq Acc Id: ENSCAFP00000062145   ⟸   ENSCAFT00000089941
RefSeq Acc Id: ENSCAFP00000052125   ⟸   ENSCAFT00000075557
RefSeq Acc Id: ENSCAFP00000062712   ⟸   ENSCAFT00000071938
RefSeq Acc Id: XP_038371009   ⟸   XM_038515081
- Peptide Label: isoform X3
RefSeq Acc Id: XP_038498789   ⟸   XM_038642861
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038498790   ⟸   XM_038642862
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038296379   ⟸   XM_038440451
- Peptide Label: isoform X1
- UniProtKB: A0A8I3QDQ2 (UniProtKB/TrEMBL),   A0A8P0SFM0 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038296380   ⟸   XM_038440452
- Peptide Label: isoform X2
- UniProtKB: A0A8I3PU95 (UniProtKB/TrEMBL),   A0A8P0P1V2 (UniProtKB/TrEMBL),   A0A8I3Q291 (UniProtKB/TrEMBL),   A0A8P0PAZ7 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038316629   ⟸   XM_038460701
- Peptide Label: isoform X2
- UniProtKB: A0A8I3PU95 (UniProtKB/TrEMBL),   A0A8P0P1V2 (UniProtKB/TrEMBL),   A0A8I3Q291 (UniProtKB/TrEMBL),   A0A8P0PAZ7 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038434606   ⟸   XM_038578678
- Peptide Label: isoform X1
- UniProtKB: A0A8I3QDQ2 (UniProtKB/TrEMBL),   A0A8P0SFM0 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038434607   ⟸   XM_038578679
- Peptide Label: isoform X2
- UniProtKB: A0A8I3PU95 (UniProtKB/TrEMBL),   A0A8I3Q291 (UniProtKB/TrEMBL),   A0A8P0P1V2 (UniProtKB/TrEMBL),   A0A8P0PAZ7 (UniProtKB/TrEMBL)
RefSeq Acc Id: ENSCAFP00845037931   ⟸   ENSCAFT00845048345
RefSeq Acc Id: ENSCAFP00845038017   ⟸   ENSCAFT00845048461
RefSeq Acc Id: ENSCAFP00845038168   ⟸   ENSCAFT00845048655
Protein Domains
S1 motif


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSCAFG00000010411 Ensembl, UniProtKB/TrEMBL
  ENSCAFG00030023532 UniProtKB/TrEMBL
  ENSCAFG00040024264 UniProtKB/TrEMBL
  ENSCAFG00845027415 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSCAFT00000016578.5 UniProtKB/TrEMBL
  ENSCAFT00000075557.2 UniProtKB/TrEMBL
  ENSCAFT00000089941.2 UniProtKB/TrEMBL
  ENSCAFT00030044178.1 UniProtKB/TrEMBL
  ENSCAFT00030044433.1 UniProtKB/TrEMBL
  ENSCAFT00030044517.1 UniProtKB/TrEMBL
  ENSCAFT00030044618.1 UniProtKB/TrEMBL
  ENSCAFT00040045240.1 UniProtKB/TrEMBL
  ENSCAFT00845048345 ENTREZGENE
  ENSCAFT00845048345.1 UniProtKB/TrEMBL
  ENSCAFT00845048461 ENTREZGENE
  ENSCAFT00845048461.1 UniProtKB/TrEMBL
  ENSCAFT00845048655.1 UniProtKB/TrEMBL
Gene3D-CATH 1.25.40.10 UniProtKB/TrEMBL
  2.40.50.140 UniProtKB/TrEMBL
InterPro HAT UniProtKB/TrEMBL
  NA-bd_OB-fold UniProtKB/TrEMBL
  Rrp5 UniProtKB/TrEMBL
  Rrp5_S1_rpt_hs11_sc8 UniProtKB/TrEMBL
  Rrp5_S1_rpt_hs1_sc1 UniProtKB/TrEMBL
  S1_domain UniProtKB/TrEMBL
  Suf UniProtKB/TrEMBL
  TPR-like_helical_dom_sf UniProtKB/TrEMBL
NCBI Gene PDCD11 ENTREZGENE
PANTHER PROTEIN RRP5 HOMOLOG UniProtKB/TrEMBL
  PTHR23270 UniProtKB/TrEMBL
Pfam PF00575 UniProtKB/TrEMBL
  Suf UniProtKB/TrEMBL
PROSITE PS50126 UniProtKB/TrEMBL
SMART HAT UniProtKB/TrEMBL
  SM00316 UniProtKB/TrEMBL
Superfamily-SCOP SSF48452 UniProtKB/TrEMBL
  SSF50249 UniProtKB/TrEMBL
UniProt A0A8C0P9H3_CANLF UniProtKB/TrEMBL
  A0A8C0PBF0_CANLF UniProtKB/TrEMBL
  A0A8C0PH43_CANLF UniProtKB/TrEMBL
  A0A8C0RSL4_CANLF UniProtKB/TrEMBL
  A0A8C0TQ12_CANLF UniProtKB/TrEMBL
  A0A8I3PU95 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I3Q291 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I3QDQ2 ENTREZGENE, UniProtKB/TrEMBL
  A0A8P0P1V2 ENTREZGENE, UniProtKB/TrEMBL
  A0A8P0PAZ7 ENTREZGENE, UniProtKB/TrEMBL
  A0A8P0SFM0 ENTREZGENE, UniProtKB/TrEMBL
VGNC ID VGNC:44335 ENTREZGENE