Atg4d (autophagy related 4D cysteine peptidase) - Rat Genome Database

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Gene: Atg4d (autophagy related 4D cysteine peptidase) Heterocephalus glaber
Analyze
Symbol: Atg4d
Name: autophagy related 4D cysteine peptidase
RGD ID: 18927450
Description: ENCODES a protein that exhibits cysteine-type exopeptidase activity (ortholog); INVOLVED IN autophagosome assembly (ortholog); PARTICIPATES IN autophagy pathway; ASSOCIATED WITH cerebellar ataxia (ortholog); Liver Reperfusion Injury (ortholog); FOUND IN cytoplasm (inferred); mitochondrion (inferred); nucleoplasm (inferred)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: cysteine protease ATG4D
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Alliance Orthologs
More Info more info ...
Latest Assembly: HetGla 1.0 - Naked Mole-Rat female 1.0 Assembly
Position:
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046248282,617,773 - 2,624,756 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046248282,617,853 - 2,624,756 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2
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  


Genomics

Comparative Map Data
Atg4d
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046248282,617,773 - 2,624,756 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046248282,617,853 - 2,624,756 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2
ATG4D
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381910,543,904 - 10,553,418 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1910,543,895 - 10,553,418 (+)EnsemblGRCh38hg38GRCh38
GRCh371910,654,580 - 10,664,094 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361910,515,647 - 10,525,094 (+)NCBINCBI36Build 36hg18NCBI36
Build 341910,515,646 - 10,525,093NCBI
Celera1910,549,363 - 10,558,810 (+)NCBICelera
Cytogenetic Map19p13.2NCBI
HuRef1910,232,683 - 10,242,060 (+)NCBIHuRef
CHM1_11910,655,287 - 10,664,815 (+)NCBICHM1_1
T2T-CHM13v2.01910,664,918 - 10,679,876 (+)NCBIT2T-CHM13v2.0
Atg4d
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39921,176,496 - 21,186,133 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl921,176,589 - 21,189,068 (+)EnsemblGRCm39 Ensembl
GRCm38921,265,205 - 21,274,837 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl921,265,293 - 21,277,772 (+)EnsemblGRCm38mm10GRCm38
MGSCv37921,069,743 - 21,078,812 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36921,015,701 - 21,024,770 (+)NCBIMGSCv36mm8
Celera918,534,424 - 18,543,493 (+)NCBICelera
Cytogenetic Map9A3NCBI
cM Map97.75NCBI
Atg4d
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8828,083,902 - 28,093,491 (+)NCBIGRCr8
mRatBN7.2819,807,733 - 19,817,321 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl819,807,766 - 19,817,321 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx823,827,592 - 23,837,142 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0822,125,441 - 22,134,991 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0820,037,455 - 20,047,010 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0822,291,445 - 22,301,331 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl822,291,445 - 22,301,331 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0822,344,081 - 22,353,967 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Celera821,199,310 - 21,208,865 (+)NCBICelera
Cytogenetic Map8q13NCBI
Atg4d
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554951,739,982 - 1,746,362 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554951,739,982 - 1,746,362 (+)NCBIChiLan1.0ChiLan1.0
ATG4D
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v22015,462,360 - 15,471,847 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11914,460,973 - 14,470,447 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01910,095,768 - 10,105,250 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11910,758,544 - 10,767,712 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1910,758,544 - 10,767,712 (+)Ensemblpanpan1.1panPan2
ATG4D
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12050,618,458 - 50,623,703 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2050,618,459 - 50,624,179 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2050,490,720 - 50,495,909 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.02051,141,597 - 51,146,788 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2051,141,586 - 51,146,773 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12050,348,430 - 50,353,618 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02050,776,503 - 50,781,692 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02051,017,552 - 51,022,743 (-)NCBIUU_Cfam_GSD_1.0
Atg4d
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405118209,513,140 - 209,531,379 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_004936659823,172 - 830,521 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_004936659823,318 - 830,642 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
ATG4D
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl269,320,331 - 69,328,519 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1269,320,313 - 69,328,522 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2269,706,013 - 69,714,211 (+)NCBISscrofa10.2Sscrofa10.2susScr3
ATG4D
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.169,555,792 - 9,565,295 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl69,555,780 - 9,568,814 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366607410,424,399 - 10,434,629 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0


Expression


Sequence


Reference Sequences
RefSeq Acc Id: ENSHGLT00000009989   ⟹   ENSHGLP00000009880
Type: CODING
Position:
Naked Mole-Rat AssemblyChrPosition (strand)Source
HetGla_female_1.0 EnsemblNW_0046248282,617,773 - 2,624,756 (+)Ensembl
RefSeq Acc Id: XM_004865505   ⟹   XP_004865562
Type: CODING
Position:
Naked Mole-Rat AssemblyChrPosition (strand)Source
HetGla 1.0NW_0046248282,617,853 - 2,624,756 (+)NCBI
RefSeq Acc Id: XM_004865506   ⟹   XP_004865563
Type: CODING
Position:
Naked Mole-Rat AssemblyChrPosition (strand)Source
HetGla 1.0NW_0046248282,618,346 - 2,624,756 (+)NCBI
Protein Sequences
Protein RefSeqs XP_004865562 (Get FASTA)   NCBI Sequence Viewer  
  XP_004865563 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSHGLP00000009880
  ENSHGLP00100014735
GenBank Protein JAO01874 (Get FASTA)   NCBI Sequence Viewer  
Reference Protein Sequences
RefSeq Acc Id: XP_004865562   ⟸   XM_004865505
- Peptide Label: isoform X1
- UniProtKB: A0A0P6JGA3 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_004865563   ⟸   XM_004865506
- Peptide Label: isoform X2
- UniProtKB: A0A0P6JGA3 (UniProtKB/TrEMBL)
RefSeq Acc Id: ENSHGLP00000009880   ⟸   ENSHGLT00000009989


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSHGLG00000007086 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
  ENSHGLG00100010908 UniProtKB/TrEMBL
Ensembl Transcript ENSHGLT00000009989 ENTREZGENE, UniProtKB/TrEMBL
  ENSHGLT00100014897 UniProtKB/TrEMBL
InterPro Papain-like_cys_pep_sf UniProtKB/TrEMBL
  Peptidase_C54 UniProtKB/TrEMBL
  Peptidase_C54_cat UniProtKB/TrEMBL
NCBI Gene Atg4d ENTREZGENE
PANTHER CYSTEINE PROTEASE ATG4D UniProtKB/TrEMBL
  PTHR22624 UniProtKB/TrEMBL
Pfam Peptidase_C54 UniProtKB/TrEMBL
Superfamily-SCOP SSF54001 UniProtKB/TrEMBL
UniProt A0A0P6JGA3 ENTREZGENE, UniProtKB/TrEMBL