CHMP2B (charged multivesicular body protein 2B) - Rat Genome Database

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Gene: CHMP2B (charged multivesicular body protein 2B) Sus scrofa
Analyze
Symbol: CHMP2B
Name: charged multivesicular body protein 2B
RGD ID: 14117037
Description: ENCODES a protein that exhibits protein domain specific binding (inferred); INVOLVED IN modulation of chemical synaptic transmission (ortholog); regulation of modification of postsynaptic structure (ortholog); regulation of postsynapse organization (ortholog); PARTICIPATES IN autophagy pathway; ASSOCIATED WITH amyotrophic lateral sclerosis (ortholog); Combined Pituitary Hormone Deficiency 1 (ortholog); Combined Pituitary Hormone Deficiency, 2 (ortholog); FOUND IN glutamatergic synapse (ortholog); nuclear pore (ortholog); postsynaptic density (ortholog); INTERACTS WITH deoxynivalenol
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: chromatin modifying protein 2B
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Squirrel
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: Sscrofa11.1 - Pig Sscrofa11.1 Assembly
Position:
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl13168,533,694 - 168,569,688 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.113168,534,950 - 168,569,574 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.213179,477,382 - 179,512,031 (-)NCBISscrofa10.2Sscrofa10.2susScr3
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
Gene Ontology Annotations     Click to see Annotation Detail View

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
References
Additional References at PubMed
PMID:14681463   PMID:30032202  


Genomics

Comparative Map Data
CHMP2B
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl13168,533,694 - 168,569,688 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.113168,534,950 - 168,569,574 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.213179,477,382 - 179,512,031 (-)NCBISscrofa10.2Sscrofa10.2susScr3
CHMP2B
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38387,227,309 - 87,255,556 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl387,227,271 - 87,255,556 (+)EnsemblGRCh38hg38GRCh38
GRCh37387,276,459 - 87,304,706 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36387,359,287 - 87,387,339 (+)NCBINCBI36Build 36hg18NCBI36
Celera388,029,539 - 88,057,175 (+)NCBICelera
Cytogenetic Map3p11.2NCBI
HuRef387,289,650 - 87,317,924 (+)NCBIHuRef
CHM1_1387,228,955 - 87,257,241 (+)NCBICHM1_1
T2T-CHM13v2.0387,301,665 - 87,329,903 (+)NCBIT2T-CHM13v2.0
Chmp2b
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391665,336,014 - 65,359,648 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1665,336,014 - 65,359,612 (-)EnsemblGRCm39 Ensembl
GRCm381665,539,128 - 65,562,762 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1665,539,128 - 65,562,726 (-)EnsemblGRCm38mm10GRCm38
MGSCv371665,539,378 - 65,562,942 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361665,457,393 - 65,480,957 (-)NCBIMGSCv36mm8
Celera1665,808,257 - 65,831,806 (-)NCBICelera
Cytogenetic Map16C1.3NCBI
cM Map1637.26NCBI
Chmp2b
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81116,783,971 - 16,810,500 (-)NCBIGRCr8
mRatBN7.2113,337,478 - 3,364,015 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl113,337,494 - 3,385,181 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1111,933,444 - 11,959,985 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0114,726,555 - 4,753,090 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0113,831,588 - 3,858,120 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0112,666,405 - 2,692,213 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl112,665,285 - 2,692,198 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0112,649,767 - 2,676,685 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4112,984,295 - 3,090,399 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1112,983,240 - 3,025,923 (-)NCBI
Celera113,315,643 - 3,340,019 (-)NCBICelera
Cytogenetic Map11p12NCBI
Chmp2b
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554076,014,478 - 6,047,916 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049554076,014,478 - 6,047,916 (-)NCBIChiLan1.0ChiLan1.0
CHMP2B
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2287,369,112 - 87,400,320 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1387,376,335 - 87,405,108 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0387,358,297 - 87,386,556 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1389,471,993 - 89,500,127 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl389,471,993 - 89,501,241 (+)Ensemblpanpan1.1panPan2
CHMP2B
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.131789,586 - 817,925 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl31791,139 - 817,895 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha31832,132 - 860,469 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.031773,787 - 802,124 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl31773,790 - 802,084 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.131752,283 - 780,608 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.031801,151 - 829,486 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0311,104,318 - 1,132,658 (-)NCBIUU_Cfam_GSD_1.0
Chmp2b
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_0244049712,282,396 - 2,320,530 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049366102,281,066 - 2,321,211 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049366102,282,925 - 2,320,554 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CHMP2B
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12289,672,043 - 89,701,801 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl2289,672,022 - 89,701,897 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366604177,021,098 - 77,060,029 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Chmp2b
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247893,557,797 - 3,587,703 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046247893,557,811 - 3,587,814 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in CHMP2B
1152 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 hemolymphoid system musculoskeletal system nervous system renal system reproductive system respiratory system
High
Medium 2 3 18 2 2
Low 8 4 5 2 5 1 3
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSSSCT00000013128   ⟹   ENSSSCP00000012782
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl13168,533,694 - 168,569,688 (-)Ensembl
RefSeq Acc Id: ENSSSCT00000046434   ⟹   ENSSSCP00000037755
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl13168,534,724 - 168,569,567 (-)Ensembl
RefSeq Acc Id: ENSSSCT00000084608   ⟹   ENSSSCP00000073286
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl13168,533,693 - 168,569,324 (-)Ensembl
RefSeq Acc Id: NM_001244420   ⟹   NP_001231349
RefSeq Status: VALIDATED
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.113168,534,950 - 168,569,574 (-)NCBI
Sequence:
RefSeq Acc Id: XM_013990175   ⟹   XP_013845629
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.113168,535,059 - 168,569,459 (-)NCBI
Sequence:
RefSeq Acc Id: XM_013990176   ⟹   XP_013845630
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.113168,535,059 - 168,569,450 (-)NCBI
Sequence:
Reference Protein Sequences
RefSeq Acc Id: NP_001231349   ⟸   NM_001244420
- Sequence:
RefSeq Acc Id: XP_013845629   ⟸   XM_013990175
- Peptide Label: isoform X1
- UniProtKB: A0A287A1F6 (UniProtKB/TrEMBL),   A0A4X1UIP9 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_013845630   ⟸   XM_013990176
- Peptide Label: isoform X1
- UniProtKB: A0A287A1F6 (UniProtKB/TrEMBL),   A0A4X1UIP9 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSSSCP00000073286   ⟸   ENSSSCT00000084608
RefSeq Acc Id: ENSSSCP00000012782   ⟸   ENSSSCT00000013128
RefSeq Acc Id: ENSSSCP00000037755   ⟸   ENSSSCT00000046434


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSSSCG00000011997 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
  ENSSSCG00005014288 UniProtKB/TrEMBL
  ENSSSCG00015077732 UniProtKB/TrEMBL
  ENSSSCG00025016703 UniProtKB/TrEMBL
  ENSSSCG00030063870 UniProtKB/TrEMBL
  ENSSSCG00035004936 UniProtKB/TrEMBL
  ENSSSCG00040004881 UniProtKB/TrEMBL
  ENSSSCG00045002751 UniProtKB/TrEMBL
  ENSSSCG00050053351 UniProtKB/TrEMBL
  ENSSSCG00055017294 UniProtKB/TrEMBL
  ENSSSCG00060014289 UniProtKB/TrEMBL
  ENSSSCG00065039234 UniProtKB/TrEMBL
  ENSSSCG00070018120 UniProtKB/TrEMBL
Ensembl Transcript ENSSSCT00000013128 ENTREZGENE
  ENSSSCT00000013128.5 UniProtKB/TrEMBL
  ENSSSCT00000046434 ENTREZGENE
  ENSSSCT00000046434.3 UniProtKB/TrEMBL
  ENSSSCT00005022400.1 UniProtKB/TrEMBL
  ENSSSCT00015105111.1 UniProtKB/TrEMBL
  ENSSSCT00015105142.1 UniProtKB/TrEMBL
  ENSSSCT00015105217.1 UniProtKB/TrEMBL
  ENSSSCT00025022476.1 UniProtKB/TrEMBL
  ENSSSCT00025022493.1 UniProtKB/TrEMBL
  ENSSSCT00025022535.1 UniProtKB/TrEMBL
  ENSSSCT00030089343.1 UniProtKB/TrEMBL
  ENSSSCT00030089353.1 UniProtKB/TrEMBL
  ENSSSCT00030089373.1 UniProtKB/TrEMBL
  ENSSSCT00035006209.1 UniProtKB/TrEMBL
  ENSSSCT00035006212.1 UniProtKB/TrEMBL
  ENSSSCT00035006218.1 UniProtKB/TrEMBL
  ENSSSCT00040006496.1 UniProtKB/TrEMBL
  ENSSSCT00040006507.1 UniProtKB/TrEMBL
  ENSSSCT00040006512.1 UniProtKB/TrEMBL
  ENSSSCT00045004300.1 UniProtKB/TrEMBL
  ENSSSCT00045004311.1 UniProtKB/TrEMBL
  ENSSSCT00045004339.1 UniProtKB/TrEMBL
  ENSSSCT00050072667.1 UniProtKB/TrEMBL
  ENSSSCT00050072669.1 UniProtKB/TrEMBL
  ENSSSCT00050072677.1 UniProtKB/TrEMBL
  ENSSSCT00055034015.1 UniProtKB/TrEMBL
  ENSSSCT00055034113.1 UniProtKB/TrEMBL
  ENSSSCT00055034238.1 UniProtKB/TrEMBL
  ENSSSCT00060018882.1 UniProtKB/TrEMBL
  ENSSSCT00060018887.1 UniProtKB/TrEMBL
  ENSSSCT00060018896.1 UniProtKB/TrEMBL
  ENSSSCT00065053626.1 UniProtKB/TrEMBL
  ENSSSCT00065053631.1 UniProtKB/TrEMBL
  ENSSSCT00065053635.1 UniProtKB/TrEMBL
  ENSSSCT00070035740.1 UniProtKB/TrEMBL
  ENSSSCT00070035743.1 UniProtKB/TrEMBL
  ENSSSCT00070035748.1 UniProtKB/TrEMBL
Gene3D-CATH 6.10.140.1230 UniProtKB/TrEMBL
InterPro Snf7_fam UniProtKB/TrEMBL
NCBI Gene CHMP2B ENTREZGENE
PANTHER CHARGED MULTIVESICULAR BODY PROTEIN 2B UniProtKB/TrEMBL
  PTHR10476 UniProtKB/TrEMBL
Pfam Snf7 UniProtKB/TrEMBL
UniProt A0A287A1F6 ENTREZGENE, UniProtKB/TrEMBL
  A0A4X1UIP9 ENTREZGENE, UniProtKB/TrEMBL
  A0A4X1UIQ4_PIG UniProtKB/TrEMBL
  A0A8D0XS55_PIG UniProtKB/TrEMBL
  A0A8D1YKV7_PIG UniProtKB/TrEMBL
UniProt Secondary A0A5G2REZ7 UniProtKB/TrEMBL
  F2Z5Q1 UniProtKB/TrEMBL
VGNC ID VGNC:86650 ENTREZGENE