VPS33B (VPS33B late endosome and lysosome associated) - Rat Genome Database

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Gene: VPS33B (VPS33B late endosome and lysosome associated) Canis lupus familiaris
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Symbol: VPS33B
Name: VPS33B late endosome and lysosome associated
RGD ID: 12192158
Description: ENCODES a protein that exhibits protein-containing complex binding (ortholog); INVOLVED IN autophagosome maturation (ortholog); collagen fibril organization (ortholog); collagen metabolic process (ortholog); ASSOCIATED WITH ARC syndrome (ortholog); arthrogryposis multiplex congenita (ortholog); arthrogryposis, renal dysfunction, and cholestasis 1 (ortholog); FOUND IN cytoplasm (ortholog); early endosome membrane (ortholog); endosome (ortholog); INTERACTS WITH mocetinostat
Type: protein-coding
RefSeq Status: MODEL
Previously known as: vacuolar protein sorting-associated protein 33B; VPS33B, late endosome and lysosome associated
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: CanFam3.1 - Dog CanFam3.1 Assembly
Position:
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1353,220,199 - 53,239,738 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl353,220,194 - 53,239,732 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha355,857,629 - 55,877,541 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0353,635,863 - 53,655,789 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl353,636,202 - 53,655,780 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1353,155,950 - 53,175,350 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0353,367,021 - 53,386,429 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0353,707,565 - 53,726,966 (+)NCBIUU_Cfam_GSD_1.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
mocetinostat  (EXP)

Gene Ontology Annotations     Click to see Annotation Detail View

Molecular Function

References
Additional References at PubMed
PMID:22301074   PMID:30032202  


Genomics

Comparative Map Data
VPS33B
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1353,220,199 - 53,239,738 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl353,220,194 - 53,239,732 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha355,857,629 - 55,877,541 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0353,635,863 - 53,655,789 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl353,636,202 - 53,655,780 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1353,155,950 - 53,175,350 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0353,367,021 - 53,386,429 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0353,707,565 - 53,726,966 (+)NCBIUU_Cfam_GSD_1.0
VPS33B
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381590,998,416 - 91,022,621 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1590,998,673 - 91,022,603 (-)EnsemblGRCh38hg38GRCh38
GRCh371591,541,646 - 91,565,851 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361589,342,778 - 89,366,837 (-)NCBINCBI36Build 36hg18NCBI36
Build 341589,342,908 - 89,366,817NCBI
Celera1567,950,993 - 67,975,048 (-)NCBICelera
Cytogenetic Map15q26.1NCBI
HuRef1567,652,646 - 67,676,700 (-)NCBIHuRef
CHM1_11591,383,344 - 91,407,392 (-)NCBICHM1_1
T2T-CHM13v2.01588,757,999 - 88,782,209 (-)NCBIT2T-CHM13v2.0
Vps33b
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39779,919,369 - 79,941,323 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl779,919,397 - 79,941,502 (+)EnsemblGRCm39 Ensembl
GRCm38780,269,621 - 80,291,579 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl780,269,649 - 80,291,754 (+)EnsemblGRCm38mm10GRCm38
MGSCv37787,414,541 - 87,436,465 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36780,143,168 - 80,165,092 (+)NCBIMGSCv36mm8
Celera777,671,004 - 77,692,429 (+)NCBICelera
Cytogenetic Map7D2NCBI
cM Map745.59NCBI
Vps33b
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81143,633,167 - 143,656,228 (+)NCBIGRCr8
mRatBN7.21134,223,967 - 134,247,232 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1134,223,949 - 134,246,970 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1142,132,808 - 142,155,824 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01149,302,207 - 149,325,221 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01142,220,133 - 142,243,114 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01142,060,955 - 142,083,955 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1142,060,955 - 142,083,953 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01143,013,798 - 143,036,707 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41136,085,931 - 136,109,421 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11136,164,336 - 136,187,825 (+)NCBI
Celera1126,284,000 - 126,307,119 (+)NCBICelera
Cytogenetic Map1q31NCBI
Vps33b
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495541615,048,106 - 15,071,102 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495541615,049,849 - 15,071,108 (-)NCBIChiLan1.0ChiLan1.0
VPS33B
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21680,552,217 - 80,576,148 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11584,250,818 - 84,274,739 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01569,691,717 - 69,715,617 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11588,888,093 - 88,912,322 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1588,888,093 - 88,912,327 (-)Ensemblpanpan1.1panPan2
Vps33b
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024408640130,303,167 - 130,327,049 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493648316,007,465 - 16,032,392 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_00493648316,007,448 - 16,031,353 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
VPS33B
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl755,840,607 - 55,865,716 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1755,840,612 - 55,865,045 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
VPS33B
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1298,838,289 - 8,862,914 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl298,838,735 - 8,862,977 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366605937,863,905 - 37,889,852 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Vps33b
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462476817,244,002 - 17,264,441 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462476817,221,809 - 17,264,264 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in VPS33B
217 total Variants

Expression

RNA-SEQ Expression

adipose tissue
alimentary part of gastrointestinal system
circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
integumental system
mesenchyme
mesoderm
nervous system
reproductive system
respiratory system
6 5 5 23 22 16 6 6 6 6 33 22 12 14 10

Sequence


Ensembl Acc Id: ENSCAFT00000019259   ⟹   ENSCAFP00000017865
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1 Ensembl353,220,489 - 53,239,732 (+)Ensembl
Ensembl Acc Id: ENSCAFT00000075013   ⟹   ENSCAFP00000061024
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1 Ensembl353,220,194 - 53,239,732 (+)Ensembl
Ensembl Acc Id: ENSCAFT00000075105   ⟹   ENSCAFP00000062971
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1 Ensembl353,220,194 - 53,239,732 (+)Ensembl
Ensembl Acc Id: ENSCAFT00845002604   ⟹   ENSCAFP00845002072
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.0 Ensembl353,636,202 - 53,655,780 (+)Ensembl
Ensembl Acc Id: ENSCAFT00845002620   ⟹   ENSCAFP00845002084
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.0 Ensembl353,636,202 - 53,655,780 (+)Ensembl
Ensembl Acc Id: ENSCAFT00845002672   ⟹   ENSCAFP00845002117
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.0 Ensembl353,636,526 - 53,655,780 (+)Ensembl
RefSeq Acc Id: XM_038471922   ⟹   XP_038327850
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UMICH_Zoey_3.1353,156,033 - 53,175,350 (+)NCBI
RefSeq Acc Id: XM_038532852   ⟹   XP_038388780
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UU_Cfam_GSD_1.0353,707,648 - 53,726,966 (+)NCBI
RefSeq Acc Id: XM_038597175   ⟹   XP_038453103
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UNSW_CanFamBas_1.0353,367,104 - 53,386,429 (+)NCBI
RefSeq Acc Id: XM_038661357   ⟹   XP_038517285
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.0353,635,946 - 53,655,789 (+)NCBI
RefSeq Acc Id: XM_536197   ⟹   XP_536197
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1353,220,199 - 53,239,738 (+)NCBI
Dog10K_Boxer_Tasha355,857,712 - 55,877,541 (+)NCBI
Sequence:
RefSeq Acc Id: XR_005323408
Type: NON-CODING
Position:
Dog AssemblyChrPosition (strand)Source
UMICH_Zoey_3.1353,155,950 - 53,175,350 (+)NCBI
RefSeq Acc Id: XR_005357074
Type: NON-CODING
Position:
Dog AssemblyChrPosition (strand)Source
UU_Cfam_GSD_1.0353,707,565 - 53,726,966 (+)NCBI
RefSeq Acc Id: XR_005391599
Type: NON-CODING
Position:
Dog AssemblyChrPosition (strand)Source
UNSW_CanFamBas_1.0353,367,021 - 53,386,429 (+)NCBI
RefSeq Acc Id: XR_005424622
Type: NON-CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.0353,635,863 - 53,655,789 (+)NCBI
RefSeq Acc Id: XR_291870
Type: NON-CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1353,220,199 - 53,239,738 (+)NCBI
Dog10K_Boxer_Tasha355,857,629 - 55,877,541 (+)NCBI
Sequence:
RefSeq Acc Id: XP_536197   ⟸   XM_536197
- UniProtKB: A0A8C0Q4T5 (UniProtKB/TrEMBL),   A0A8C0R2E0 (UniProtKB/TrEMBL),   A0A8I3MEB9 (UniProtKB/TrEMBL),   A0A8C0PZ62 (UniProtKB/TrEMBL),   A0A8I3MEC3 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSCAFP00000017865   ⟸   ENSCAFT00000019259
Ensembl Acc Id: ENSCAFP00000061024   ⟸   ENSCAFT00000075013
Ensembl Acc Id: ENSCAFP00000062971   ⟸   ENSCAFT00000075105
RefSeq Acc Id: XP_038327850   ⟸   XM_038471922
RefSeq Acc Id: XP_038453103   ⟸   XM_038597175
RefSeq Acc Id: XP_038517285   ⟸   XM_038661357
- UniProtKB: A0A8C0Q4T5 (UniProtKB/TrEMBL),   A0A8C0R2E0 (UniProtKB/TrEMBL),   A0A8I3MEB9 (UniProtKB/TrEMBL),   A0A8C0PZ62 (UniProtKB/TrEMBL),   A0A8I3MEC3 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038388780   ⟸   XM_038532852
- UniProtKB: A0A8C0PZ62 (UniProtKB/TrEMBL),   A0A8C0Q4T5 (UniProtKB/TrEMBL),   A0A8C0R2E0 (UniProtKB/TrEMBL),   A0A8I3MEB9 (UniProtKB/TrEMBL),   A0A8I3MEC3 (UniProtKB/TrEMBL)
Ensembl Acc Id: ENSCAFP00845002084   ⟸   ENSCAFT00845002620
Ensembl Acc Id: ENSCAFP00845002117   ⟸   ENSCAFT00845002672
Ensembl Acc Id: ENSCAFP00845002072   ⟸   ENSCAFT00845002604


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSCAFG00000012113 Ensembl, UniProtKB/TrEMBL
  ENSCAFG00030002168 UniProtKB/TrEMBL
  ENSCAFG00040002071 UniProtKB/TrEMBL
  ENSCAFG00845001444 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSCAFT00000019259.5 UniProtKB/TrEMBL
  ENSCAFT00000075013.2 UniProtKB/TrEMBL
  ENSCAFT00000075105.2 UniProtKB/TrEMBL
  ENSCAFT00000109243.1 UniProtKB/TrEMBL
  ENSCAFT00030004054.1 UniProtKB/TrEMBL
  ENSCAFT00030004162.1 UniProtKB/TrEMBL
  ENSCAFT00040004024.1 UniProtKB/TrEMBL
  ENSCAFT00040004079.1 UniProtKB/TrEMBL
  ENSCAFT00040004125.1 UniProtKB/TrEMBL
  ENSCAFT00845002604 ENTREZGENE
  ENSCAFT00845002604.1 UniProtKB/TrEMBL
  ENSCAFT00845002620.1 UniProtKB/TrEMBL
  ENSCAFT00845002672.1 UniProtKB/TrEMBL
Gene3D-CATH 1.25.40.850 UniProtKB/TrEMBL
  3.40.50.1910 UniProtKB/TrEMBL
  3.40.50.2060 UniProtKB/TrEMBL
InterPro Sec-1-like_dom1 UniProtKB/TrEMBL
  Sec-1-like_dom3a UniProtKB/TrEMBL
  Sec1-like UniProtKB/TrEMBL
  Sec1-like_dom2 UniProtKB/TrEMBL
  Sec1-like_sf UniProtKB/TrEMBL
  VPS33_dom3b UniProtKB/TrEMBL
KEGG Report cfa:479048 UniProtKB/TrEMBL
NCBI Gene VPS33B ENTREZGENE
PANTHER PTHR11679 UniProtKB/TrEMBL
  VACUOLAR PROTEIN SORTING-ASSOCIATED PROTEIN 33B UniProtKB/TrEMBL
Pfam Sec1 UniProtKB/TrEMBL
Superfamily-SCOP SSF56815 UniProtKB/TrEMBL
UniProt A0A8C0PZ62 ENTREZGENE, UniProtKB/TrEMBL
  A0A8C0Q192_CANLF UniProtKB/TrEMBL
  A0A8C0Q4T5 ENTREZGENE, UniProtKB/TrEMBL
  A0A8C0R2E0 ENTREZGENE
  A0A8I3MEB9 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I3MEC3 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I3MG77_CANLF UniProtKB/TrEMBL
  A0A8P0TLS4_CANLF UniProtKB/TrEMBL
VGNC ID VGNC:48284 ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2019-01-30 VPS33B  VPS33B late endosome and lysosome associated    VPS33B, late endosome and lysosome associated  Symbol and/or name change 5135510 APPROVED