Cideb (cell death-inducing DNA fragmentation factor, alpha subunit-like effector B) - Rat Genome Database

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Gene: Cideb (cell death-inducing DNA fragmentation factor, alpha subunit-like effector B) Mus musculus
Analyze
Symbol: Cideb
Name: cell death-inducing DNA fragmentation factor, alpha subunit-like effector B
RGD ID: 1320651
MGI Page MGI
Description: Enables lipid transfer activity; molecular adaptor activity; and phosphatidic acid binding activity. Involved in several processes, including COPII-coated vesicle cargo loading; lipid droplet fusion; and very-low-density lipoprotein particle assembly. Part of COPII vesicle coat. Is active in Golgi apparatus; endoplasmic reticulum membrane; and lipid droplet. Is expressed in autopod; dorsal root ganglion; and urinary system. Orthologous to human CIDEB (cell death inducing DFFA like effector b).
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: 1110030C18Rik; AI790179; cell death activator CIDE-B; cell death-inducing DFFA-like effector B; CIDE-; CIDE-B; DFFA-like B; lipid transferase CIDEB
RGD Orthologs
Human
Rat
Chinchilla
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: GRCm39 - Mouse Genome Assembly GRCm39
Position:
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391455,991,509 - 55,995,881 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1455,991,507 - 55,995,915 (-)EnsemblGRCm39 Ensembl
GRCm381455,754,052 - 55,758,424 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1455,754,050 - 55,758,458 (-)EnsemblGRCm38mm10GRCm38
MGSCv371456,372,889 - 56,377,261 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361454,708,119 - 54,717,288 (-)NCBIMGSCv36mm8
Celera1453,559,100 - 53,563,472 (-)NCBICelera
Cytogenetic Map14C3NCBI
cM Map1428.19NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(+)-schisandrin B  (ISO)
(1->4)-beta-D-glucan  (EXP)
1,1,1-Trichloro-2-(o-chlorophenyl)-2-(p-chlorophenyl)ethane  (ISO)
17beta-estradiol  (ISO)
1H-pyrazole  (EXP)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,3-dimethoxynaphthalene-1,4-dione  (ISO)
2-hydroxypropanoic acid  (ISO)
3,4-methylenedioxymethamphetamine  (EXP)
4,4'-sulfonyldiphenol  (ISO)
4-hydroxyphenyl retinamide  (EXP)
5-fluorouracil  (ISO)
aflatoxin B1  (EXP,ISO)
Aroclor 1254  (ISO)
arsane  (ISO)
arsenic atom  (ISO)
arsenous acid  (ISO)
benzo[a]pyrene  (ISO)
bisphenol A  (ISO)
bisphenol F  (ISO)
bortezomib  (ISO)
cadmium atom  (ISO)
cadmium dichloride  (ISO)
carbon nanotube  (EXP)
CGP 52608  (ISO)
ciguatoxin CTX1B  (EXP)
cisplatin  (ISO)
cobalt dichloride  (ISO)
cocaine  (EXP)
copper(II) sulfate  (ISO)
cyclosporin A  (ISO)
diarsenic trioxide  (ISO)
endosulfan  (ISO)
epoxiconazole  (EXP)
fenthion  (EXP)
folic acid  (ISO)
furan  (ISO)
furosemide  (ISO)
hydroxyurea  (EXP)
inulin  (EXP)
lead(0)  (ISO)
lipopolysaccharide  (ISO)
mercury atom  (ISO)
mercury(0)  (ISO)
Mitotane  (ISO)
Myrtucommulone A  (EXP)
N-nitrosodimethylamine  (ISO)
N-Nitrosopyrrolidine  (ISO)
nickel dichloride  (ISO)
nitrofen  (ISO)
O-methyleugenol  (ISO)
ochratoxin A  (ISO)
p-anisidine  (EXP)
p-menthan-3-ol  (ISO)
paclitaxel  (EXP)
paracetamol  (EXP,ISO)
paraquat  (ISO)
perfluorononanoic acid  (ISO)
perfluorooctane-1-sulfonic acid  (EXP)
pinostrobin  (ISO)
propanal  (ISO)
quercetin  (ISO)
rac-lactic acid  (ISO)
S-(1,2-dichlorovinyl)-L-cysteine  (ISO)
silicon dioxide  (ISO)
sodium arsenite  (ISO)
sodium dichromate  (ISO)
tetrachloroethene  (EXP)
tetrachloromethane  (EXP,ISO)
tetracycline  (EXP)
thioacetamide  (ISO)
troglitazone  (ISO)

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
# Reference Title Reference Citation
1. Impaired VLDL assembly: a novel mechanism contributing to hepatic lipid accumulation following ovariectomy and high-fat/high-cholesterol diets? Côté I, etal., Br J Nutr. 2014 Nov 28;112(10):1592-600. doi: 10.1017/S0007114514002517. Epub 2014 Sep 29.
2. Functional annotation of a full-length mouse cDNA collection. Kawai J, etal., Nature. 2001 Feb 8;409(6821):685-90.
3. MGDs mouse GO annotations MGD data from the GO Consortium
4. Analysis of the mouse transcriptome based on functional annotation of 60,770 full-length cDNAs. Okazaki Y, etal., Nature. 2002 Dec 5;420(6915):563-73.
5. Comparative analysis of apoptosis and inflammation genes of mice and humans. Reed JC, etal., Genome Res 2003 Jun;13(6B):1376-88.
6. Mouse MP Annotation Import Pipeline RGD automated import pipeline
7. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
8. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:8889548   PMID:9564035   PMID:9867840   PMID:10349636   PMID:11042159   PMID:11076861   PMID:12429024   PMID:12477932   PMID:15489334   PMID:16141072   PMID:16141073   PMID:17646209  
PMID:18287559   PMID:18799693   PMID:19187774   PMID:20123130   PMID:20575761   PMID:21267068   PMID:21386911   PMID:21677750   PMID:21873635   PMID:22278400   PMID:22661308   PMID:23297397  
PMID:24703692   PMID:24831470   PMID:26609809   PMID:26733203   PMID:27709293   PMID:28719542   PMID:30858281  


Genomics

Comparative Map Data
Cideb
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391455,991,509 - 55,995,881 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1455,991,507 - 55,995,915 (-)EnsemblGRCm39 Ensembl
GRCm381455,754,052 - 55,758,424 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1455,754,050 - 55,758,458 (-)EnsemblGRCm38mm10GRCm38
MGSCv371456,372,889 - 56,377,261 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361454,708,119 - 54,717,288 (-)NCBIMGSCv36mm8
Celera1453,559,100 - 53,563,472 (-)NCBICelera
Cytogenetic Map14C3NCBI
cM Map1428.19NCBI
CIDEB
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381424,305,187 - 24,311,435 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1424,305,187 - 24,311,430 (-)EnsemblGRCh38hg38GRCh38
GRCh371424,774,393 - 24,780,641 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361423,844,233 - 23,850,416 (-)NCBINCBI36Build 36hg18NCBI36
Build 341423,844,237 - 23,850,435NCBI
Celera144,639,022 - 4,645,205 (-)NCBICelera
Cytogenetic Map14q12NCBI
HuRef144,889,560 - 4,895,743 (-)NCBIHuRef
CHM1_11424,772,993 - 24,779,176 (-)NCBICHM1_1
T2T-CHM13v2.01418,503,530 - 18,509,778 (-)NCBIT2T-CHM13v2.0
Cideb
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81533,222,135 - 33,226,407 (-)NCBIGRCr8
mRatBN7.21529,252,208 - 29,256,482 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1529,252,213 - 29,256,605 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1531,097,885 - 31,102,157 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01532,245,097 - 32,249,369 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01530,487,436 - 30,491,708 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01534,439,844 - 34,444,244 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1534,439,876 - 34,444,244 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01538,328,205 - 38,332,605 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41533,916,472 - 33,920,872 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11533,932,176 - 33,936,396 (-)NCBI
Celera1528,826,926 - 28,831,327 (-)NCBICelera
Cytogenetic Map15p13NCBI
Cideb
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495540935,993,853 - 35,996,935 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495540935,993,853 - 35,996,935 (+)NCBIChiLan1.0ChiLan1.0
CIDEB
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.184,275,700 - 4,278,612 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha84,197,353 - 4,200,244 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.084,386,491 - 4,389,382 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl84,386,937 - 4,389,334 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.184,076,834 - 4,079,730 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.084,138,662 - 4,141,553 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.084,401,246 - 4,404,137 (-)NCBIUU_Cfam_GSD_1.0
Cideb
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440864036,138,982 - 36,147,569 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_004936722245,567 - 249,917 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_004936722241,484 - 249,935 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CIDEB
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl774,982,855 - 74,985,775 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1774,982,941 - 74,985,776 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2780,253,881 - 80,256,403 (+)NCBISscrofa10.2Sscrofa10.2susScr3
Pig Cytomap7q21NCBI
CIDEB
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1 Ensembl241,287,932 - 1,291,573 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366603612,972,792 - 12,975,751 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Cideb
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046248208,196,653 - 8,199,367 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046248208,196,608 - 8,199,346 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Cideb
111 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:418
Count of miRNA genes:329
Interacting mature miRNAs:363
Transcripts:ENSMUST00000001497, ENSMUST00000136270
Prediction methods:Miranda, Rnahybrid, Targetscan
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 (GRCm39)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1357589Kdnw2_mkidney weight 2 (mouse)Not determined1420887473121269804Mouse
1357527Epfpq1_mepididymal fat percentage QTL 1 (mouse)Not determined142106245071885801Mouse
14746973Manh76_mmandible shape 76 (mouse)142228721756287217Mouse
4142485Modor2_mmodifier of ocular retardation 2 (mouse)Not determined142492624858179769Mouse
13506929Recrq10_mrecombination rate in male meiosis QTL 10 (mouse)142792195761137449Mouse
10043886Cia49_mcollagen induced arthritis QTL 49 (mouse)Not determined142999699463997133Mouse
27226774Tibl15_mtibia length 15, 10 week (mouse)143032195787937436Mouse
1300909Ath13_matherosclerosis 13 (mouse)Not determined143033525064335381Mouse
1300998Cia17_mcollagen induced arthritis 17 (mouse)Not determined143033525064335381Mouse
27226737Metcl12_mmetatarsal-calcaneal length 12, 10 week (mouse)143322195759437449Mouse
1300625Cosz2_mcocaine seizure 2 (mouse)Not determined143504579768785736Mouse
10043887Cia50_mcollagen induced arthritis QTL 50 (mouse)Not determined143743018571430320Mouse
4142419Tgq26_mtriglyceride QTL 26 (mouse)Not determined4033731974337319Mouse
1301777Bglq15_mbody growth late QTL 15 (mouse)Not determined144296241676962593Mouse
1301424Skull21_mskull morphology 21 (mouse)Not determined144296241676962593Mouse
1300805Mors3_mmodifier of obesity related sterility 3 (mouse)Not determined144303727077037418Mouse
1301091Bbaa21_mB.burgdorferi-associated arthritis 21 (mouse)Not determined144306584777066045Mouse
4141400Nilac8_mnicotine induced locomotor activity 8 (mouse)Not determined144306584777066045Mouse
4141484Hcbip1_mhexachlorobenzene induced porphyria 1 (mouse)Not determined4733525059962593Mouse
1300605El5_mepilepsy 5 (mouse)Not determined144945542583455556Mouse
4142364Pbwg18_mpostnatal body weight growth 18 (mouse)Not determined145228198486282125Mouse
1301489Lbm10_mlean body mass 10 (mouse)Not determined145376129687761529Mouse
12880432Fgf23lq3_mFGF23 serum level QTL 3 (mouse)145393744087937440Mouse

Markers in Region
AI790179  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm381455,754,134 - 55,754,232UniSTSGRCm38
MGSCv371456,372,971 - 56,373,069UniSTSGRCm37
Celera1453,559,182 - 53,559,280UniSTS
Cytogenetic Map14C1UniSTS
Whitehead/MRC_RH14422.58UniSTS


Expression


Sequence


RefSeq Acc Id: ENSMUST00000001497   ⟹   ENSMUSP00000001497
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1455,991,507 - 55,995,915 (-)Ensembl
GRCm38.p6 Ensembl1455,754,050 - 55,758,458 (-)Ensembl
RefSeq Acc Id: ENSMUST00000136270
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1455,992,115 - 55,995,836 (-)Ensembl
GRCm38.p6 Ensembl1455,754,658 - 55,758,379 (-)Ensembl
RefSeq Acc Id: NM_009894   ⟹   NP_034024
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391455,991,509 - 55,995,881 (-)NCBI
GRCm381455,754,052 - 55,758,424 (-)ENTREZGENE
MGSCv371456,372,889 - 56,377,261 (-)RGD
Celera1453,559,100 - 53,563,472 (-)RGD
cM Map14 ENTREZGENE
Sequence:
RefSeq Acc Id: NP_034024   ⟸   NM_009894
- UniProtKB: Q91X39 (UniProtKB/Swiss-Prot),   O70303 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: ENSMUSP00000001497   ⟸   ENSMUST00000001497
Protein Domains
CIDE-N

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-O70303-F1-model_v2 AlphaFold O70303 1-219 view protein structure

Promoters
RGD ID:8682470
Promoter ID:EPDNEW_M19266
Type:initiation region
Name:Cideb_1
Description:Mus musculus cell death-inducing DNA fragmentation factor, alphasubunit-like effector B , mRNA.
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm381455,758,370 - 55,758,430EPDNEW
RGD ID:6847094
Promoter ID:MM_ACW:16092
Type:Non-CpG
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:BoneMarrow_0Hour,   Lung
Transcripts:CIDEB.DSEP07-UNSPLICED
Position:
Mouse AssemblyChrPosition (strand)Source
MGSCv361456,373,691 - 56,374,191 (-)MPROMDB
RGD ID:6824776
Promoter ID:MM_KWN:16990
Type:Non-CpG
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:3T3L1_Day1,   BoneMarrow_0Hour,   Kidney,   Liver,   Lung,   MEF_B6
Transcripts:ENSMUST00000100533,   OTTMUST00000068961,   OTTMUST00000068962
Position:
Mouse AssemblyChrPosition (strand)Source
MGSCv361456,377,026 - 56,377,526 (-)MPROMDB

Additional Information

Database Acc Id Source(s)
AGR Gene MGI:1270844 AgrOrtholog
Ensembl Genes ENSMUSG00000022219 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSMUST00000001497 ENTREZGENE
  ENSMUST00000001497.9 UniProtKB/Swiss-Prot
Gene3D-CATH 3.10.20.10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
InterPro CIDE-N_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report mmu:12684 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
MGD MGI:1270844 ENTREZGENE
NCBI Gene 12684 ENTREZGENE
PANTHER CELL DEATH ACTIVATOR CIDE UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  CELL DEATH ACTIVATOR CIDE-B UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam CIDE-N UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Cideb PhenoGen
PROSITE CIDE_N UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
SMART CAD UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP CAD & PB1 domains UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt CIDEB_MOUSE UniProtKB/Swiss-Prot, ENTREZGENE
  Q3V4D3_MOUSE UniProtKB/TrEMBL
  Q91X39 ENTREZGENE
UniProt Secondary Q91X39 UniProtKB/Swiss-Prot