USP39 (ubiquitin specific peptidase 39) - Rat Genome Database

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Gene: USP39 (ubiquitin specific peptidase 39) Chlorocebus sabaeus
Analyze
Symbol: USP39
Name: ubiquitin specific peptidase 39
RGD ID: 18591910
Description: ENCODES a protein that exhibits cysteine-type deubiquitinase activity (ortholog); INVOLVED IN mRNA processing (inferred); mRNA splicing, via spliceosome (inferred); protein deubiquitination (inferred); ASSOCIATED WITH Colonic Neoplasms (ortholog); Experimental Neoplasms (ortholog); hereditary spastic paraplegia 31 (ortholog); FOUND IN nucleoplasm (inferred); nucleus (inferred); spliceosomal complex (inferred)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: U4/U6.U5 tri-snRNP-associated 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
ChlSab1.11421,507,666 - 21,554,819 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1421,508,104 - 21,541,553 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366604590,913,997 - 90,971,480 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
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

References
Additional References at PubMed
PMID:22301074  


Genomics

Comparative Map Data
USP39
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11421,507,666 - 21,554,819 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1421,508,104 - 21,541,553 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366604590,913,997 - 90,971,480 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
USP39
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38285,602,861 - 85,649,283 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl285,602,856 - 85,649,283 (+)EnsemblGRCh38hg38GRCh38
GRCh37285,829,984 - 85,876,406 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36285,696,794 - 85,729,917 (+)NCBINCBI36Build 36hg18NCBI36
Build 34285,754,940 - 85,788,063NCBI
Celera285,671,566 - 85,704,705 (+)NCBICelera
Cytogenetic Map2p11.2NCBI
HuRef285,727,104 - 85,773,387 (+)NCBIHuRef
CHM1_1285,759,771 - 85,806,166 (+)NCBICHM1_1
T2T-CHM13v2.0285,604,921 - 85,651,339 (+)NCBIT2T-CHM13v2.0
Usp39
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39672,295,749 - 72,322,190 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl672,295,661 - 72,322,167 (-)EnsemblGRCm39 Ensembl
GRCm38672,318,676 - 72,345,208 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl672,318,678 - 72,345,184 (-)EnsemblGRCm38mm10GRCm38
MGSCv37672,268,670 - 72,295,169 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36672,248,185 - 72,274,684 (-)NCBIMGSCv36mm8
Celera674,408,796 - 74,435,299 (-)NCBICelera
Cytogenetic Map6C1NCBI
cM Map632.27NCBI
Usp39
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr84105,932,140 - 105,964,551 (-)NCBIGRCr8
mRatBN7.24104,373,948 - 104,406,359 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl4104,373,955 - 104,406,359 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx4109,754,240 - 109,786,619 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.04105,529,358 - 105,561,736 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.04104,143,607 - 104,176,020 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.04100,181,408 - 100,211,425 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl4100,181,455 - 100,213,858 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.04164,952,169 - 164,982,100 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.44105,623,922 - 105,650,275 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.14105,868,446 - 105,900,853 (-)NCBI
Celera493,527,956 - 93,554,280 (-)NCBICelera
Cytogenetic Map4q32NCBI
Usp39
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554241,867,850 - 1,894,157 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049554241,867,910 - 1,893,338 (-)NCBIChiLan1.0ChiLan1.0
USP39
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21240,733,638 - 40,779,733 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan12A40,736,399 - 40,782,484 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v02A85,655,633 - 85,701,775 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.12A87,219,121 - 87,251,931 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl2A87,215,366 - 87,251,931 (+)Ensemblpanpan1.1panPan2
USP39
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11739,437,908 - 39,470,579 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1739,438,329 - 39,470,549 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1739,109,745 - 39,141,965 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.01740,184,513 - 40,217,215 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1740,184,513 - 40,217,432 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11739,314,066 - 39,346,743 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01739,386,575 - 39,418,768 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01739,785,977 - 39,818,386 (-)NCBIUU_Cfam_GSD_1.0
Usp39
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440629279,196,882 - 79,233,019 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049367121,625,802 - 1,661,533 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049367121,625,429 - 1,661,561 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
USP39
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl359,121,048 - 59,156,442 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1359,121,381 - 59,156,597 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2362,195,078 - 62,215,382 (-)NCBISscrofa10.2Sscrofa10.2susScr3
Usp39
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462474917,501,219 - 17,526,712 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462474917,500,781 - 17,526,755 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in USP39
937 total Variants

Expression

RNA-SEQ Expression

ectoderm
endocrine system
hemolymphoid system
mesenchyme
mesoderm
nervous system
reproductive system
76 36 20 36 36 60 20

Sequence


Ensembl Acc Id: ENSCSAT00000014308   ⟹   ENSCSAP00000012284
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
ChlSab1.1 Ensembl1421,508,104 - 21,541,553 (-)Ensembl
RefSeq Acc Id: XM_007970009   ⟹   XP_007968200
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
ChlSab1.11421,507,666 - 21,541,638 (-)NCBI
Vero_WHO_p1.0NW_02366604590,927,207 - 90,961,739 (+)NCBI
Sequence:
RefSeq Acc Id: XM_007970013   ⟹   XP_007968204
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
ChlSab1.11421,507,666 - 21,554,819 (-)NCBI
Vero_WHO_p1.0NW_02366604590,913,997 - 90,961,739 (+)NCBI
Sequence:
RefSeq Acc Id: XM_038007193   ⟹   XP_037863121
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
Vero_WHO_p1.0NW_02366604590,927,207 - 90,961,739 (+)NCBI
RefSeq Acc Id: XM_038007194   ⟹   XP_037863122
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
Vero_WHO_p1.0NW_02366604590,927,207 - 90,971,480 (+)NCBI
Protein Sequences
Protein RefSeqs XP_007968200 (Get FASTA)   NCBI Sequence Viewer  
  XP_007968204 (Get FASTA)   NCBI Sequence Viewer  
  XP_037863121 (Get FASTA)   NCBI Sequence Viewer  
  XP_037863122 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSCSAP00000012284.1
RefSeq Acc Id: XP_007968204   ⟸   XM_007970013
- Peptide Label: isoform X2
RefSeq Acc Id: XP_007968200   ⟸   XM_007970009
- Peptide Label: isoform X1
Ensembl Acc Id: ENSCSAP00000012284   ⟸   ENSCSAT00000014308
RefSeq Acc Id: XP_037863122   ⟸   XM_038007194
- Peptide Label: isoform X1
RefSeq Acc Id: XP_037863121   ⟸   XM_038007193
- Peptide Label: isoform X1


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSCSAG00000016215 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSCSAT00000014308.1 UniProtKB/TrEMBL
Gene3D-CATH 3.30.40.10 UniProtKB/TrEMBL
  Cysteine proteinases UniProtKB/TrEMBL
InterPro Papain-like_cys_pep_sf UniProtKB/TrEMBL
  Peptidase_C19_UCH UniProtKB/TrEMBL
  Ub_carboxyl-term_hydrolase UniProtKB/TrEMBL
  USP39 UniProtKB/TrEMBL
  USP_dom UniProtKB/TrEMBL
  Znf_RING/FYVE/PHD UniProtKB/TrEMBL
  Znf_UBP UniProtKB/TrEMBL
KEGG Report csab:103219938 UniProtKB/TrEMBL
NCBI Gene USP39 ENTREZGENE
PANTHER PTHR21646:SF16 UniProtKB/TrEMBL
  UBIQUITIN CARBOXYL-TERMINAL HYDROLASE UniProtKB/TrEMBL
Pfam UCH UniProtKB/TrEMBL
  zf-UBP UniProtKB/TrEMBL
PROSITE USP_3 UniProtKB/TrEMBL
  ZF_UBP UniProtKB/TrEMBL
SMART ZnF_UBP UniProtKB/TrEMBL
Superfamily-SCOP RING/U-box UniProtKB/TrEMBL
  SSF54001 UniProtKB/TrEMBL
UniProt A0A0D9RUJ5_CHLSB UniProtKB/TrEMBL