Chmp4bl1 (chromatin modifying protein 4B-like 1) - Rat Genome Database

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Gene: Chmp4bl1 (chromatin modifying protein 4B-like 1) Rattus norvegicus
Analyze
No known orthologs.
Symbol: Chmp4bl1
Name: chromatin modifying protein 4B-like 1
RGD ID: 1583604
Description: Involved in regulation of postsynapse organization. Is active in glutamatergic synapse and postsynaptic density. Human ortholog(s) of this gene implicated in cataract 31 multiple types. Orthologous to several human genes including CHMP4B (charged multivesicular body protein 4B); PARTICIPATES IN endocytosis pathway; INTERACTS WITH 1,2-dimethylhydrazine; 17alpha-ethynylestradiol; 17beta-estradiol.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: LOC679886; similar to Charged multivesicular body protein 4b (Chromatin-modifying protein 4b) (CHMP4b)
RGD Orthologs
Alliance Orthologs
More Info homologs ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8469,016,565 - 69,017,614 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl469,016,527 - 69,017,617 (+)EnsemblGRCr8
mRatBN7.2468,049,742 - 68,050,791 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl468,049,705 - 68,050,676 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx472,972,598 - 72,973,643 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0468,893,733 - 68,894,778 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0467,301,345 - 67,302,393 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0467,059,939 - 67,060,988 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl467,059,939 - 67,060,974 (+)Ensemblrn6Rnor6.0
Rnor_5.0466,867,507 - 66,868,556 (+)NCBIRnor_5.0Rnor_5.0rn5
Celera463,056,979 - 63,058,027 (+)NCBICelera
Cytogenetic Map4q23NCBI
JBrowse:




Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
# Reference Title Reference Citation
1. Regulation of postsynaptic function by the dementia-related ESCRT-III subunit CHMP2B. Chassefeyre R, etal., J Neurosci. 2015 Feb 18;35(7):3155-73. doi: 10.1523/JNEUROSCI.0586-14.2015.
2. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
3. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
4. KEGG Annotation Import Pipeline Pipeline to import KEGG annotations from KEGG into RGD
5. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:15632090   PMID:35352799  


Genomics

Variants

.
Variants in Chmp4bl1
2 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:68
Count of miRNA genes:63
Interacting mature miRNAs:67
Transcripts:ENSRNOT00000052393
Prediction methods:Miranda, Rnahybrid
Result types:miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.


QTLs in Region (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1358352Srcrt3Stress Responsive Cort QTL 32.29blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)439431983123203361Rat
1549843Bw53Body weight QTL 530.0001body mass (VT:0001259)body weight gain (CMO:0000420)459753119104753119Rat
61445Strs3Sensitivity to stroke QTL 33cerebrum integrity trait (VT:0010549)post-insult time to onset of cerebrovascular lesion (CMO:0002343)44140057786400577Rat
6893678Bw108Body weight QTL 1082.60.006body mass (VT:0001259)body weight (CMO:0000012)44442502489425024Rat
10755501Bp390Blood pressure QTL 3902.5arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)427730518170099664Rat
1358363Sradr3Stress Responsive Adrenal Weight QTL 36.19adrenal gland mass (VT:0010420)both adrenal glands wet weight (CMO:0000164)458817672103817672Rat
61330Eau1Experimental allergic uveoretinitis QTL 10.0003uvea integrity trait (VT:0010551)experimental autoimmune uveitis score (CMO:0001504)426234499134199155Rat
61336Bp21Blood pressure QTL 214.6arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)45808014680212111Rat
6909128Pancm4Pancreatic morphology QTL 411.35pancreas mass (VT:0010144)pancreas wet weight (CMO:0000626)427862204126119996Rat
61475Aia2Adjuvant induced arthritis QTL 25.8joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)44047145375939996Rat
8694439Bw168Body weight QTL 1689.570.001retroperitoneal fat pad mass (VT:0010430)retroperitoneal fat pad weight to body weight ratio (CMO:0000635)44140060386400603Rat
1641919Alc22Alcohol consumption QTL 220.0005drinking behavior trait (VT:0001422)ethanol drink intake rate (CMO:0001407)465060960127749483Rat
8655906Rf60Renal function QTL 603.8blood creatinine amount (VT:0005328)creatinine clearance (CMO:0000765)43044896182336920Rat
2317577Eae24Experimental allergic encephalomyelitis QTL 24nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis severity score (CMO:0001419)46796011273752811Rat
1354660Salc1Saline consumption QTL 111.26drinking behavior trait (VT:0001422)saline drink intake rate (CMO:0001627)445429897149763204Rat
1298082Stresp4Stress response QTL 4blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)451085655113588029Rat
1300139Hrtrt6Heart rate QTL 62.85heart pumping trait (VT:2000009)heart rate (CMO:0000002)440490442117737312Rat
70200Alc18Alcohol consumption QTL 189.2drinking behavior trait (VT:0001422)ethanol intake volume to total fluid intake volume ratio (CMO:0001591)457613339151163960Rat
4889969Bss96Bone structure and strength QTL 964.9tibia size trait (VT:0100001)tibia cortical bone volume (CMO:0001725)457613242102613242Rat
2316958Gluco58Glucose level QTL 5810blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)412212457182430611Rat
4889972Bss97Bone structure and strength QTL 975.6tibia size trait (VT:0100001)tibia total bone volume (CMO:0001724)457613242102613242Rat
6478684Anxrr30Anxiety related response QTL 300.00087defecation behavior trait (VT:0010462)defecation rate (CMO:0000998)464084079109084079Rat
5685012Bmd87Bone mineral density QTL 875.1tibia mineral mass (VT:1000283)bone mineral content (CMO:0001554)43511329080113290Rat
5685009Bmd86Bone mineral density QTL 863.7tibia mineral mass (VT:1000283)bone mineral density (CMO:0001226)457613242102613242Rat
1331807Rf31Renal function QTL 312.988urine potassium amount (VT:0010539)urine potassium level (CMO:0000128)44049044275726188Rat
634311Sach7Saccharin preference QTL 7taste sensitivity trait (VT:0001986)saccharin intake volume to total fluid intake volume ratio (CMO:0001601)45807987582597589Rat
2306547Iddm38Insulin dependent diabetes mellitus QTL 38blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)468353567113353567Rat
738009Sach4Saccharine consumption QTL 44.90.000016consumption behavior trait (VT:0002069)saccharin intake volume to total fluid intake volume ratio (CMO:0001601)460916264184426481Rat
631261Tcas3Tongue tumor susceptibility QTL 36.88tongue integrity trait (VT:0010553)number of squamous cell tumors of the tongue with diameter greater than 3 mm (CMO:0001950)41170660492690519Rat
6478772Anxrr49Anxiety related response QTL 490.15488defecation behavior trait (VT:0010462)defecation rate (CMO:0000998)464084079109084079Rat
2312569Pur19Proteinuria QTL 193.40.001urine total protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)459836842104836842Rat
8655961Kidm43Kidney mass QTL 4318kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)43726957782269577Rat
1354612Foco1Food consumption QTL 18.87eating behavior trait (VT:0001431)food intake rate (CMO:0000427)445429897149763204Rat
634344Hcar7Hepatocarcinoma resistance QTL 77.8liver integrity trait (VT:0010547)liver tumorous lesion number (CMO:0001068)46104105794638356Rat
2303168Bp330Blood pressure QTL 3304.250.017arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)45889999148002343Rat
738031Alc14Alcohol consumption QTL 147.60.00003consumption behavior trait (VT:0002069)ethanol drink intake rate to body weight ratio (CMO:0001616)460916264174095838Rat
1576305Emca6Estrogen-induced mammary cancer QTL 65.8mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)445429709157555683Rat
631651Bp124Blood pressure QTL 1243arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)464209744109209744Rat
61418Pia5Pristane induced arthritis QTL 54.5joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)463245026129846354Rat
738016Alc16Alcohol consumption QTL 163.60.00015consumption behavior trait (VT:0002069)ethanol drink intake rate to body weight ratio (CMO:0001616)460916264184426481Rat
1558651Swd3Spike wave discharge measurement QTL 34.620.000024brain electrophysiology trait (VT:0010557)brain spike-and-wave discharge frequency (CMO:0001742)44140057786400577Rat
1641833Alc21Alcohol consumption QTL 218.60.0001drinking behavior trait (VT:0001422)ethanol drink intake rate (CMO:0001407)457664252127749483Rat
631674Iddm14Insulin dependent diabetes mellitus QTL 14blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)465495851159259805Rat
631546Bp86Blood pressure QTL 863.2arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)45807987592690793Rat
6478743Anxrr40Anxiety related response QTL 400.83076defecation behavior trait (VT:0010462)defecation rate (CMO:0000998)464084079109084079Rat
61434Cia3Collagen induced arthritis QTL 34.8joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)463224393108224393Rat
7394826Bw126Body weight QTL 1260.002body mass (VT:0001259)body weight gain (CMO:0000420)46390045888813920Rat
12798520Anxrr55Anxiety related response QTL 554.450.01locomotor behavior trait (VT:0001392)number of rearing movements with lid-pushing in an experimental apparatus (CMO:0002715)433538597116185060Rat
631671Iddm11Insulin dependent diabetes mellitus QTL 113.60.0012blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)45960331980216952Rat


Expression

RNA-SEQ Expression

alimentary part of gastrointestinal system
appendage
circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
integumental system
mesenchyme
mesoderm
musculoskeletal system
nervous system
renal system
reproductive system
respiratory system
sensory system
visual system
16 11 66 154 91 90 59 92 59 6 354 190 9 133 81 92 31 11 11

Sequence


Ensembl Acc Id: ENSRNOT00000052393   ⟹   ENSRNOP00000045686
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl469,016,527 - 69,017,617 (+)Ensembl
mRatBN7.2 Ensembl468,049,705 - 68,050,676 (+)Ensembl
Rnor_6.0 Ensembl467,059,939 - 67,060,974 (+)Ensembl
RefSeq Acc Id: NM_001276456   ⟹   NP_001263385
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8469,016,565 - 69,017,614 (+)NCBI
mRatBN7.2468,049,742 - 68,050,791 (+)NCBI
Rnor_6.0467,059,939 - 67,060,988 (+)NCBI
Rnor_5.0466,867,507 - 66,868,556 (+)NCBI
Celera463,056,979 - 63,058,027 (+)NCBI
Sequence:
Protein Sequences
Protein RefSeqs NP_001263385 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EDM15379 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000045686
  ENSRNOP00000045686.1
RefSeq Acc Id: NP_001263385   ⟸   NM_001276456
- UniProtKB: D4A9Z8 (UniProtKB/TrEMBL),   A6IEU2 (UniProtKB/TrEMBL),   A6KI03 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000045686   ⟸   ENSRNOT00000052393

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D4A9Z8-F1-model_v2 AlphaFold D4A9Z8 1-224 view protein structure

Transcriptome

eQTL   View at Phenogen
WGCNA   View at Phenogen
Tissue/Strain Expression   View at Phenogen

Promoters
RGD ID:13692978
Promoter ID:EPDNEW_R3503
Type:initiation region
Name:Chmp4bl1_1
Description:chromatin modifying protein 4B-like 1
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0467,059,914 - 67,059,974EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1583604 AgrOrtholog
BioCyc Gene G2FUF-45192 BioCyc
Ensembl Genes ENSRNOG00000034071 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000052393 ENTREZGENE
  ENSRNOT00000052393.4 UniProtKB/TrEMBL
Gene3D-CATH 6.10.250.1710 UniProtKB/TrEMBL
  ESAT-6-like UniProtKB/TrEMBL
InterPro Snf7 UniProtKB/TrEMBL
KEGG Report rno:679886 UniProtKB/TrEMBL
NCBI Gene 679886 ENTREZGENE
PANTHER CHARGED MULTIVESICULAR BODY PROTEIN 4B UniProtKB/TrEMBL
  PTHR22761 UniProtKB/TrEMBL
Pfam Snf7 UniProtKB/TrEMBL
PhenoGen Chmp4bl1 PhenoGen
RatGTEx ENSRNOG00000034071 RatGTEx
UniProt A6IEU2 ENTREZGENE, UniProtKB/TrEMBL
  A6KI03 ENTREZGENE, UniProtKB/TrEMBL
  D4A9Z8 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2010-04-21 Chmp4bl1  chromatin modifying protein 4B-like 1  LOC679886  similar to Charged multivesicular body protein 4b (Chromatin-modifying protein 4b) (CHMP4b)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-01-09 LOC679886  similar to Charged multivesicular body protein 4b (Chromatin-modifying protein 4b) (CHMP4b)  LOC684321  similar to Charged multivesicular body protein 4b (Chromatin-modifying protein 4b) (CHMP4b)  Data merged from RGD:1591491 1643240 APPROVED
2006-11-20 LOC684321  similar to Charged multivesicular body protein 4b (Chromatin-modifying protein 4b) (CHMP4b)      Symbol and Name status set to provisional 70820 PROVISIONAL
2006-11-19 LOC679886  similar to Charged multivesicular body protein 4b (Chromatin-modifying protein 4b) (CHMP4b)      Symbol and Name status set to provisional 70820 PROVISIONAL