Ciao2b (cytosolic iron-sulfur assembly component 2B) - Rat Genome Database

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Gene: Ciao2b (cytosolic iron-sulfur assembly component 2B) Rattus norvegicus
Analyze
Symbol: Ciao2b
Name: cytosolic iron-sulfur assembly component 2B
RGD ID: 1585802
Description: Predicted to be involved in chromosome segregation; iron-sulfur cluster assembly; and protein maturation by iron-sulfur cluster transfer. Predicted to be located in cytosol; nucleoplasm; and spindle. Predicted to be part of MMXD complex and cytosolic [4Fe-4S] assembly targeting complex. Orthologous to human CIAO2B (cytosolic iron-sulfur assembly component 2B); PARTICIPATES IN cytosolic iron-sulfur cluster protein assembly pathway; INTERACTS WITH 2,2',4,4'-Tetrabromodiphenyl ether; 2,3,7,8-tetrachlorodibenzodioxine; 6-propyl-2-thiouracil.
Type: protein-coding
RefSeq Status: INFERRED
Previously known as: Fam96b; family with sequence similarity 96, member B; LOC291818; LOC680987; mitotic spindle-associated MMXD complex subunit MIP18; RGD1311762; similar to Hypothetical protein CGI-128 homolog; similar to Protein FAM96B
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Alliance Orthologs
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr819350,644 - 352,518 (+)NCBIGRCr8
mRatBN7.219344,194 - 346,068 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl19344,203 - 346,068 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx19332,274 - 334,136 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0191,099,082 - 1,100,944 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.019374,277 - 376,139 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.019551,708 - 553,573 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl19551,708 - 553,573 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.019545,968 - 547,833 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.419262,410 - 264,275 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera19340,409 - 342,274 (+)NCBICelera
Cytogenetic Map19p14NCBI
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

Cellular Component

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
# Reference Title Reference Citation
1. 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.
2. Iron-sulfur cluster biogenesis in mammalian cells: New insights into the molecular mechanisms of cluster delivery. Maio N and Rouault TA, Biochim Biophys Acta. 2015 Jun;1853(6):1493-512. doi: 10.1016/j.bbamcr.2014.09.009. Epub 2014 Sep 19.
3. Biogenesis of cytosolic and nuclear iron-sulfur proteins and their role in genome stability. Paul VD and Lill R, Biochim Biophys Acta. 2015 Jun;1853(6):1528-39. doi: 10.1016/j.bbamcr.2014.12.018. Epub 2015 Jan 10.
4. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
5. Comprehensive gene review and curation RGD comprehensive gene curation
Additional References at PubMed
PMID:20797633   PMID:22678361   PMID:22678362   PMID:23585563   PMID:23891004   PMID:25002582  


Genomics

Comparative Map Data
Ciao2b
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr819350,644 - 352,518 (+)NCBIGRCr8
mRatBN7.219344,194 - 346,068 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl19344,203 - 346,068 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx19332,274 - 334,136 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0191,099,082 - 1,100,944 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.019374,277 - 376,139 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.019551,708 - 553,573 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl19551,708 - 553,573 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.019545,968 - 547,833 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.419262,410 - 264,275 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera19340,409 - 342,274 (+)NCBICelera
Cytogenetic Map19p14NCBI
CIAO2B
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381666,932,065 - 66,934,402 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1666,932,065 - 66,934,423 (-)EnsemblGRCh38hg38GRCh38
GRCh371666,965,968 - 66,968,305 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361665,523,467 - 65,525,804 (-)NCBINCBI36Build 36hg18NCBI36
Celera1651,474,217 - 51,476,579 (-)NCBICelera
Cytogenetic Map16q22.1NCBI
HuRef1652,840,068 - 52,842,436 (-)NCBIHuRef
CHM1_11668,372,966 - 68,375,334 (-)NCBICHM1_1
T2T-CHM13v2.01672,726,365 - 72,728,702 (-)NCBIT2T-CHM13v2.0
Ciao2b
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm398105,366,471 - 105,368,360 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl8105,366,470 - 105,368,597 (-)EnsemblGRCm39 Ensembl
GRCm388104,639,839 - 104,641,728 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl8104,639,838 - 104,641,965 (-)EnsemblGRCm38mm10GRCm38
MGSCv378107,163,739 - 107,165,628 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv368107,528,968 - 107,530,857 (-)NCBIMGSCv36mm8
Celera8108,872,435 - 108,874,324 (-)NCBICelera
Cytogenetic Map8D3NCBI
cM Map853.04NCBI
Ciao2b
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0NW_00495543323,435,373 - 23,437,383 (-)NCBIChiLan1.0ChiLan1.0
CIAO2B
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21876,431,846 - 76,434,209 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11682,344,374 - 82,346,676 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01647,247,278 - 47,249,617 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11666,349,377 - 66,351,744 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1666,349,377 - 66,351,733 (-)Ensemblpanpan1.1panPan2
CIAO2B
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1582,384,719 - 82,386,655 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl582,384,756 - 82,386,540 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha582,373,423 - 82,375,356 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0582,821,338 - 82,823,270 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl582,821,370 - 82,823,154 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1582,644,528 - 82,646,461 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0582,331,365 - 82,333,201 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0582,970,292 - 82,972,228 (+)NCBIUU_Cfam_GSD_1.0
Ciao2b
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440934942,404,843 - 42,407,348 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493647517,181,536 - 17,184,271 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_00493647517,181,766 - 17,184,266 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CIAO2B
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl627,610,470 - 27,612,592 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1627,610,469 - 27,612,617 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
CIAO2B
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1552,631,539 - 52,633,949 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl552,631,354 - 52,633,856 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366604723,279,758 - 23,282,125 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0

Variants

.
Variants in Ciao2b
3 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:26
Count of miRNA genes:25
Interacting mature miRNAs:25
Transcripts:ENSRNOT00000015811
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 (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1549847Bss8Bone structure and strength QTL 84lumbar vertebra strength trait (VT:0010574)vertebra ultimate force (CMO:0001678)19131963836Rat
8552935Pigfal10Plasma insulin-like growth factor 1 level QTL 105.7blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)19136824771Rat
7411590Foco7Food consumption QTL 76.80.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)19124688055Rat
631678Cm9Cardiac mass QTL 94.270.0001aorta mass (VT:0002845)aorta weight (CMO:0000076)19128982497Rat
631681Cm12Cardiac mass QTL 123.330.00053heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)19128982497Rat
9590298Uminl5Urine mineral level QTL 53.590.001urine mineral amount (VT:0015086)urine electrolyte level (CMO:0000593)19136824771Rat
9590250Scort11Serum corticosterone level QTL 1123.450.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)19136824771Rat
9590090Insglur8Insulin/glucose ratio QTL 810.810.001blood insulin amount (VT:0001560)calculated plasma insulin level (CMO:0002170)19136824771Rat
10054132Srcrt9Stress Responsive Cort QTL 92.870.0017blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)19127355345Rat

Markers in Region
RH125925  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.219345,814 - 346,037 (+)MAPPERmRatBN7.2
Rnor_6.019553,320 - 553,542NCBIRnor6.0
Rnor_5.019547,580 - 547,802UniSTSRnor5.0
RGSC_v3.419264,022 - 264,244UniSTSRGSC3.4
Celera19342,021 - 342,243UniSTS
Cytogenetic Map19p14UniSTS


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
nervous system
renal system
reproductive system
respiratory system
9 11 49 113 91 90 59 25 59 6 218 97 93 45 60 31

Sequence


Ensembl Acc Id: ENSRNOT00000015811   ⟹   ENSRNOP00000015811
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl19344,203 - 346,068 (+)Ensembl
Rnor_6.0 Ensembl19551,708 - 553,573 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000108110   ⟹   ENSRNOP00000095933
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl19344,203 - 346,051 (+)Ensembl
RefSeq Acc Id: NM_001144854   ⟹   NP_001138326
RefSeq Status: INFERRED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr819350,653 - 352,518 (+)NCBI
mRatBN7.219344,203 - 346,068 (+)NCBI
Rnor_6.019551,708 - 553,573 (+)NCBI
Rnor_5.019545,968 - 547,833 (+)NCBI
RGSC_v3.419262,410 - 264,275 (+)RGD
Celera19340,409 - 342,274 (+)RGD
Sequence:
RefSeq Acc Id: XM_039097978   ⟹   XP_038953906
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr819350,644 - 352,501 (+)NCBI
mRatBN7.219344,194 - 346,061 (+)NCBI
Protein Sequences
Protein RefSeqs NP_001138326 (Get FASTA)   NCBI Sequence Viewer  
  XP_038953906 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000015811.4
  ENSRNOP00000095933.1
RefSeq Acc Id: NP_001138326   ⟸   NM_001144854
- UniProtKB: D3Z8Q7 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000015811   ⟸   ENSRNOT00000015811
RefSeq Acc Id: XP_038953906   ⟸   XM_039097978
- Peptide Label: isoform X1
Ensembl Acc Id: ENSRNOP00000095933   ⟸   ENSRNOT00000108110
Protein Domains
MIP18 family-like

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D3Z8Q7-F1-model_v2 AlphaFold D3Z8Q7 1-165 view protein structure

Transcriptome

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

Promoters
RGD ID:13700905
Promoter ID:EPDNEW_R11429
Type:initiation region
Name:Fam96b_1
Description:family with sequence similarity 96, member B
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_6.019551,737 - 551,797EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1585802 AgrOrtholog
BioCyc Gene G2FUF-6658 BioCyc
Ensembl Genes ENSRNOG00000011865 Ensembl, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000015811.7 UniProtKB/TrEMBL
  ENSRNOT00000108110.1 UniProtKB/TrEMBL
Gene3D-CATH 3.30.300.130 UniProtKB/TrEMBL
  6.10.250.1280 UniProtKB/TrEMBL
InterPro DUF59 UniProtKB/TrEMBL
  FSCA_dom UniProtKB/TrEMBL
  MIP18 UniProtKB/TrEMBL
KEGG Report rno:680987 UniProtKB/TrEMBL
NCBI Gene 680987 ENTREZGENE
PANTHER CYTOSOLIC IRON-SULFUR ASSEMBLY COMPONENT 2B UniProtKB/TrEMBL
  PTHR12377 UniProtKB/TrEMBL
Pfam DUF59 UniProtKB/TrEMBL
PhenoGen Ciao2b PhenoGen
RatGTEx ENSRNOG00000011865 RatGTEx
Superfamily-SCOP SSF117916 UniProtKB/TrEMBL
UniProt A0A8I6B3I8_RAT UniProtKB/TrEMBL
  D3Z8Q7 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2018-05-25 Ciao2b  cytosolic iron-sulfur assembly component 2B  Fam96b  family with sequence similarity 96, member B  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2009-06-15 Fam96b  family with sequence similarity 96, member B  RGD1311762  similar to Hypothetical protein CGI-128 homolog   Data merged from RGD:1311762 1643240 APPROVED
2008-04-30 RGD1311762  similar to Hypothetical protein CGI-128 homolog   RGD1311762_predicted  similar to Hypothetical protein CGI-128 homolog (predicted)  'predicted' is removed 2292626 APPROVED
2008-03-05 Fam96b  family with sequence similarity 96, member B  LOC680987  similar to Protein FAM96B  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-01-09 LOC680987  similar to Protein FAM96B  LOC679251  similar to Protein FAM96B  Data merged from RGD:1590707 1643240 APPROVED
2006-11-20 LOC679251  similar to Protein FAM96B      Symbol and Name status set to provisional 70820 PROVISIONAL
2006-11-19 LOC680987  similar to Protein FAM96B      Symbol and Name status set to provisional 70820 PROVISIONAL
2005-01-20 RGD1311762_predicted  similar to Hypothetical protein CGI-128 homolog (predicted)  LOC291818_predicted    Symbol and Name status set to approved 1331353 APPROVED
2005-01-12 LOC291818_predicted  similar to Hypothetical protein CGI-128 homolog (predicted)      Symbol and Name status set to provisional 70820 PROVISIONAL