CCDC88B Gene
protein-coding GIFtS: 43
GCID: GC11P064107
|
|
coiled-coil domain containing 88B(Previous name: coiled-coil domain containing 88 )
(Previous symbol: CCDC88)
| |
Aliases
for CCDC88B gene
(According to
1HGNC,
2Entrez Gene,
3UniProtKB/Swiss-Prot,
4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc,
7Ensembl,
8DME,
9miRBase,
and/or 10fRNAdb)
About This Section
|
| Aliases |
|---|
| Coiled-Coil Domain Containing 88B1 2 | | FLJ379701 | | BRLZ1 2 3 | | Coiled-Coil Domain Containing 881 | | CCDC881 2 | | 78 KDa Glucose-Regulated Protein [GRP78]-Interacting Protein Induced By ERStress2 | | HkRP31 3 | | HKRP32 | | Brain Leucine Zipper Domain-Containing Protein2 3 | | Brain Leucine Zipper Protein2 | | Hook-Related Protein 32 3 | | Coiled-Coil Domain-Containing Protein 88B2 | | FLJ003541 | | Gipie1 |
Export aliases for CCDC88B gene to outside databasesPrevious GC identifers: GC11P063866 GC11P060435 |
Summaries
for CCDC88B gene(According to Entrez Gene,
Tocris Bioscience,
Wikipedia's
Gene Wiki,
PharmGKB,
UniProtKB/Swiss-Prot,
and/or
UniProtKB/TrEMBL)
About This Section
|
Entrez Gene summary for CCDC88B:
This gene encodes a member of the hook-related protein family. Members of this family are characterized by anN-terminal potential microtubule binding domain, a central coiled-coiled and a C-terminal Hook-related domain. Theencoded protein may be involved in linking organelles to microtubules. (provided by RefSeq, Oct 2009)
|
Genomic Views
for CCDC88B gene
(According to
GeneLoc and/or
HGNC, and/or
Entrez Gene (NCBI build 37),
and/or miRBase,
Genomic Views according to
UCSC (hg19) and
Ensembl (release 69),
Regulatory elements and Epigenetics data according to
QIAGEN,
SABiosciences, and/or
SwitchGear Genomics)
About This Section
| RefSeq DNA sequence:- NC_000011.9 NC_018922.1 NT_167190.1
Regulatory elements:
 SABiosciences Regulatory transcription factor binding sites in the CCDC88B gene promoter:
CREB Tal-1 deltaCREB E47
Other transcription factors
Search SABiosciences Chromatin IP Primers for CCDC88B
Epigenetics:
| | QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat CCDC88B |
Genomic Location:
Genomic View: UCSC Golden Path with GeneCards custom track
Entrez Gene cytogenetic band: 11q12.3 Ensembl cytogenetic band: 11q13.1 HGNC cytogenetic band: 11q13.1CCDC88B Gene in genomic location: bands according to Ensembl, locations according to
 (and/or Entrez Gene and/or Ensembl if different)
GeneLoc information about chromosome 11 GeneLoc Exon Structure GeneLoc location for GC11P064107: view genomic region
(about GC identifiers)
Start:
|
64,107,690 bp from pter |
End:
|
64,125,006 bp from pter |
Size:
|
17,317 bases |
Orientation:
|
plus strand |
|
Proteins
for CCDC88B gene
(According to
1UniProtKB,
HORDE,
neXtProt,
Ensembl,
and/or Reactome,
Modification sites according to 2PhosphoSitePlus,
Specific Peptides from DME,
Protein expression images according to data from SPIRE MOPED and PaxDb,
RefSeq according to NCBI,
PDB rendering according to OCA and/or Proteopedia,
Recombinant Proteins
from
EMD Millipore,
R&D Systems,
GenScript,
Enzo Life Sciences,
OriGene,
Novus Biologicals,
Sino Biological,
ProSpec, and/or
Uscn,
Biochemical Assays by
EMD Millipore,
R&D Systems,
OriGene,
GenScript,
Cell Signaling Technology,
Enzo Life Sciences, and/or
Uscn,
Ontologies according to Gene
Ontology Consortium 01 Mar 2013 and
Entrez Gene,
Antibodies by
EMD Millipore,
R&D Systems,
GenScript,
Cell Signaling Technology,
OriGene,
Novus Biologicals,
Thermo Fisher Scientific,
Abcam, and/or
Uscn)
About This Section
|
UniProtKB/Swiss-Prot: CC88B_HUMAN, A6NC98 (See
protein sequence)Recommended Name: Coiled-coil domain-containing protein 88B Size: 1476 amino acids; 164809 Da
Sequence caution: Sequence=BAC03417.1; Type=Erroneous initiation;
Secondary accessions: A5D8Y5 B5MDM2 Q05BL2 Q6RUV3 Q8N1Q6 Q8NF44 Q9H0H1Alternative splicing: 6 isoforms: A6NC98-1 A6NC98-2 A6NC98-3 A6NC98-4 A6NC98-5 A6NC98-6 (No experimental confirmation available)Explore the universe of human proteins at neXtProt for CCDC88B: NX_A6NC98
Post-translational modifications:
View modification sites using PhosphoSitePlus2View neXtProt modification sites for NX_A6NC98
CCDC88B Protein expression data from MOPED and PaxDb: About this image 
REFSEQ proteins: NP_115627.6
ENSEMBL proteins: ENSP00000349238 ENSP00000352974 ENSP00000301897
Human Recombinant Protein Products:
Gene Ontology (GO): 1 cellular component term (GO ID links to tree view): About this table | GO ID | Qualified GO term | Evidence | PubMed IDs |
|---|
| GO:0005737 | cytoplasm |
IEA | -- |
CCDC88B for ontologies About GeneDecksing
CCDC88B Antibody Products:
Assay Products for CCDC88B: |
Protein
Domains /
Families
for CCDC88B gene(According to InterPro, ProtoNet,
UniProtKB, and/or BLOCKS,
Sets of similar genes according to GeneDecks)
About This Section
|
CCDC88B for domains About GeneDecksing
1 InterPro domain/family:Graphical View of Domain Structure for InterPro Entry A6NC98ProtoNet protein and cluster: A6NC98 UniProtKB/Swiss-Prot: CC88B_HUMAN, A6NC98Similarity: Belongs to the CCDC88 family |
Function
for CCDC88B gene
(According to 1UniProtKB,
Genatlas,
LifeMap Discovery™,
IUBMB, and/or
2DME,
Human phenotypes from GenomeRNAi,
Animal models from MGI Mar 06 2013,
bound targets from SABiosciences,
miRNA Gene Targets from miRTarBase
shRNA from
OriGene,
RNAi from
EMD Millipore,
siRNAs from
OriGene,
QIAGEN,
microRNA from QIAGEN,
Gene Editing from DNA2.0,
Clones from EMD Millipore,
OriGene,
SwitchGear Genomics,
GenScript,
Sino Biological,
DNA2.0,
and Vector BioLabs,
Cell Lines from GenScript,
LifeMap BioReagents,
In Situ Hybridization Assays from Advanced Cell Diagnostics,
Ontologies according to Gene Ontology Consortium 01 Mar 2013 via
Entrez Gene.)
About This Section
|
Clone
Products: |  | Browse Clones for the Expression of Recombinant Proteins Available from EMD Millipore | |  | OriGene Myc/DDK tagged cDNA clones in CMV expression vector in human, mouse, rat for CCDC88B (see all 2)
OriGene untagged cDNA clones in CMV expression vector in human, mouse, rat for CCDC88B (see all 2)
OriGene custom cloning services – gene synthesis, subcloning, mutagenesis,
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| |  | GenScript: all cDNA clones in your preferred vector: CCDC88B (NM_032251) | |  | Browse Sino Biological Human cDNA Clones | |  | DNA2.0 Custom Codon Optimized Gene
Synthesis Service for CCDC88B | |  | Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat CCDC88B |
In Situ Assay
Products: |
 | Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for CCDC88B |
Gene Ontology (GO): 1 molecular function term (GO ID links to tree view): About this table | GO ID | Qualified GO term | Evidence | PubMed IDs |
|---|
| GO:0008017 | microtubule binding |
IEA | -- |
CCDC88B for ontologies About GeneDecksing
|
Pathways & Interactions
for CCDC88B gene
(Pathways according to
EMD Millipore,
R&D Systems,
Cell Signaling Technology,
KEGG,
PharmGKB,
BioSystems,
Reactome,
Tocris Bioscience,
GeneGo (Thomson Reuters),
QIAGEN,
and/or UniProtKB,
Sets of similar genes according to GeneDecks,
Interaction Networks according to
SABiosciences,
and/or STRING,
Interactions according to 1UniProtKB,
2MINT,
3I2D, and/or
4STRING,
with links to IntAct and
Ensembl,
Ontologies according to Gene Ontology Consortium 01 Mar 2013 via
Entrez Gene).
About This Section
|
Interactions:
Search SABiosciences Gene Network CentralTM Interacting Genes and Proteins Networks for CCDC88B
STRING Interaction
Network Preview (showing 4 interactants - click image to see more details)
5/6 Interacting proteins for CCDC88B (A6NC983 ENSP000003492384) via UniProtKB, MINT, STRING, and/or I2D (see all 6)About this table
Gene Ontology (GO): 1 biological process term (GO ID links to tree view): About this table | GO ID | Qualified GO term | Evidence | PubMed IDs |
|---|
| GO:0000226 | microtubule cytoskeleton organization |
IEA | -- |
CCDC88B for ontologies About GeneDecksing
|
Drugs & Compounds
for CCDC88B gene(Chemical Compounds according to UniProtKB, Enzo Life Sciences,
EMD Millipore, Tocris Bioscience
HMDB,
BitterDB, and/or
Novoseek, and Drugs according to
DrugBank,
Enzo Life Sciences, and/or
PharmGKB, with drugs/clinical trials/news
search links to CenterWatch)
About This Section
|
 Browse Tocris compounds for CCDC88B
Search CenterWatch for drugs/clinical trials and news about CCDC88B / CC88B
|
Transcripts
for CCDC88B gene(Secondary structures according to
fRNAdb,
GenBank/EMBL/DDBJ Accessions according to
Unigene
(Build 235 Homo sapiens; Mar 10 2013) or GenBank,
RefSeq according to Entrez Gene,
DOTS (version 10), and/or
AceView,
transcript ids from Ensembl
with links to UCSC,
exon structure from GeneLoc,
alternative splicing isoforms according to ASD and/or
ECgene,
RNAi Products from
EMD Millipore,
siRNAs from
OriGene,
QIAGEN,
shRNA from
OriGene,
microRNA from QIAGEN,
Tagged/untagged cDNA clones from
OriGene,
SwitchGear Genomics,
GenScript,
DNA2.0,
Vector BioLabs,
Primers from
OriGene,
SABiosciences, and/or
QIAGEN
)
About This Section
|
REFSEQ mRNAs for CCDC88B gene: NM_032251.5 Unigene Cluster for CCDC88B: Coiled-coil domain containing 88B Hs.98564 [show with all ESTs]Unigene Representative Sequence: BC15121811 Ensembl transcripts including schematic representations, and UCSC links where relevant: ENST00000463837 ENST00000356786(uc009ypo.2 uc001nzy.3 uc001oac.3)
ENST00000494080 ENST00000494566(uc001nzz.1) ENST00000492980 ENST00000359902(uc001oaa.3)
ENST00000491320 ENST00000479965(uc001oab.1) ENST00000473405 ENST00000472524
ENST00000301897
Clone
Products: | | OriGene Myc/DDK tagged cDNA clones in CMV expression vector in human, mouse, rat for CCDC88B (see all 2)
OriGene untagged cDNA clones in CMV expression vector in human, mouse, rat for CCDC88B (see all 2)
OriGene custom cloning services – gene synthesis, subcloning, mutagenesis,
variant library, vector shuttling
| | | GenScript: all cDNA clones in your preferred vector: CCDC88B (NM_032251) | | | DNA2.0 Custom Codon Optimized Gene
Synthesis Service for CCDC88B | | | Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat CCDC88B |
Additional cDNA sequence: AK095289.1 AL136799.1 AY491401.1 BC030194.1 BC040232.1 BC140822.1 BC140824.1 BC141866.1 BC151218.1 BC151222.1 10 DOTS entries: DT.99943095 DT.100754779 DT.92052105 DT.97804907 DT.100715851 DT.308479 DT.95374527 DT.120714958 DT.95103402 DT.97839231 24/77 AceView cDNA sequences (see all 77): AK074126 BC040232 BQ052264 BU542529 CD672940 BQ944786 BX280238 BE674671 NM_032251 CR623413 BQ053526 BQ056644 CA428241 BC030194 BQ706508 AY491401 BU854817 AA515594 BX384834 BM194552 AK095289 BQ064009 BE241518 BQ424009
GeneLoc Exon Structure
5/15 Alternative Splicing Database (ASD) splice patterns (SP) for CCDC88B (see all 15) About this scheme
| ExUns: | 1 | ^ | 2a | · | 2b | ^ | 3 | ^ | 4 | ^ | 5 | ^ | 6a | · | 6b | ^ | 7a | · | 7b | ^ | 8 | ^ | 9 | ^ | 10a | · | 10b | · | 10c | ^ | 11 | ^ | 12a | · | 12b | ^ | 13 | ^ | 14 | ^ | 15a | · | 15b | ^ | 16 | ^ | 17a | · | 17b | ^ | 18a | · |
|---|
|
| SP1: | | | | | | | | | | | | | | | | | | | | | - | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | |
| SP2: | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | |
| SP3: | | | | | | | | | | | | | | | | | | | | | - | | | | | | | | - | | | | | | | | | | | | | | | | | | | | | | | | |
| SP4: | | | | | | | | | | | | | | | | | | | | | | | | | | | | | - | | | | | | | | | | | | | | | | | | | | | | | | |
| SP5: | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | |
| ExUns: | 18b | ^ | 19 | ^ | 20 | ^ | 21a | · | 21b | · | 21c | ^ | 22a | · | 22b | ^ | 23a | · | 23b | · | 23c | · | 23d |
|---|
|
| SP1: | | | | | | | | | | | | | | | | | | | | | | | | | |
| SP2: | | | | | | | | | | | | | | | | | | | | | | | | | |
| SP3: | | | | | | | | | | | | | | | | | | | | | | | | | |
| SP4: | | | | | | | | | | | | | | | | | | | | | | | | | |
| SP5: | | | | | | | | | | | | | | | | | | | | | | | | |
ECgene alternative splicing isoforms for CCDC88B
|
Expression
for CCDC88B gene
(RNA expression data according to
H-InvDB,
NONCODE,
miRBase, and
RNAdb,
Expression images according to data from
BioGPS,
Illumina Human BodyMap, and
CGAP
SAGE,
Sets of similar genes according to GeneDecks,
in vivo and in vitro expression data from LifeMap Discovery™,
plus additional links to
Genevestigator, and/or
SOURCE, and/or
BioGPS, and/or
UniProtKB,
PCR Arrays from
SABiosciences,
Primers from
OriGene,
SABiosciences, and/or
QIAGEN,
In Situ Hybridization Assays from Advanced Cell Diagnostics)
About This Section
| CCDC88B expression in normal human tissues (normalized intensities)
See probesets specificity/sensitivity at GeneAnnot
About this imageBioGPS
CGAP TAG: --
About this image
See CCDC88B Protein Expression from SPIRE MOPED and PaxDB
Genevestigator expression for CCDC88B
SOURCE GeneReport for Unigene cluster: Hs.98564
SABiosciences Custom PCR Arrays for CCDC88B
Primer
Products: | | OriGene genome-wide validated SYBR primer pairs in human, mouse, rat for CCDC88B
Browse OriGene validated miRNA SYBR primer pairs
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Assay Products: |
| Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for CCDC88B |
Orthologs
for CCDC88B gene
(Orthologs according to
1,2HomoloGene (2older version, for species not in 1newer version),
3euGenes,
4SGD
,
5MGI Mar 06 2013,
with possible further links to
Flybase
and/or
WormBase,
and/or
6Ensembl pan taxonomic compara ,
Gene Trees according to Ensembl and
TreeFam)
About This Section
|
This gene was present in the common ancestor of eukaryotes.
Orthologs for CCDC88B gene from 4/10 species (see all 10) About this table
ENSEMBL Gene Tree for CCDC88B (if available)
TreeFam Gene Tree for CCDC88B (if available) |
Paralogs
for CCDC88B gene(Paralogs according to
1HomoloGene,
2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
About This Section
| Paralogs for CCDC88B gene
- HOOK22 HOOK12 CCDC88A2 CCDC88C2 HOOK32
3 SIMAP similar genes for CCDC88B using alignment to 3 protein entries: CC88B_HUMAN (see all proteins):FLJ00214 FLJ00198 CCDC88A
CCDC88B for paralogs About GeneDecksing
|
Genomic Variants
for CCDC88B gene(SNPs/Variants according to the
1NCBI SNP Database,
2Ensembl,
3PupaSUITE,
UniProtKB, and
DNA2.0,
Linkage Disequilibrium by HapMap,
Structural Variations(CNVs/InDels/Inversions) from the Database of Genomic Variants, Mutations from the Human Gene
Mutation Database (HGMD) and the Locus Specific Mutation
Databases (LSDB), Blood group antigen gene mutations by BGMUT,
Resequencing Primers from QIAGEN,
Cancer Mutation PCR Arrays and Assays and Copy Number PCR Arrays from SABiosciences)
About This Section
|
| Genomic Data | Transcription Related Data | Allele Frequencies | | SNP ID | Valid | Clinical
significance | Chr 11 pos | Sequence | # | AA
Chg | Type | More | # | Allele
freq | Pop | Total
sample | More |
|---|
HapMap Linkage Disequilibrium report for CCDC88B (64107690 - 64125006 bp)
Structural Variations (Copy Number Variations, Insertions/Deletions, Inversions)
Database of Genomic Variants (DGV): 1 variation for CCDC88B
1 CNV: 10364 | SABiosciences Cancer Mutation PCR Assays |
| | QIAGEN SeqTarget long-range PCR primers in human, mouse, rat for resequencing CCDC88B |
|
Disorders
/ Diseases
for CCDC88B gene
(in which this Gene is Involved, According to MalaCards,
OMIM, UniProtKB,
the University of Copenhagen DISEASES
database,
Genatlas, GeneTests,
GAD,
HuGE Navigator,
and/or TGDB.)
About This Section
|
 CCDC88B for disorders About MalaCards
CCDC88B for disorders About GeneDecksing
OMIM gene information: 611205
OMIM disorders: --
Export disorders for CCDC88B gene to outside databases
|
Publications
for CCDC88B gene (in
PubMed.
Associations of this gene to articles via
1Entrez Gene,
2UniProtKB/Swiss-Prot,
3HGNC,
4GAD,
5PharmGKB,
6HMDB,
7DrugBank,
8UniProtKB/TrEMBL,
9 Novoseek, and/or
10fRNAdb)
About This Section
|
PubMed articles for CCDC88B gene, integrated from 9 sources (see all 12):
(articles sorted by number of sources associating them with CCDC88B) | |  | Utopia: connect your pdf to the dynamic
world of online information |
- A novel hook-related protein family and the characterization of hook- related protein 1. (PubMed id 15882442)1, 3 Simpson F.... Wicking C. (2005)
- Complete sequencing and characterization of 21,243 full-length human cDNAs. (PubMed id 14702039)1, 2 Ota T.... Sugano S. (2004)
- Towards a catalog of human genes and proteins: sequencing and analysis of 500 novel complete protein coding human cDNAs. (PubMed id 11230166)1, 2 Wiemann S.... Poustka A. (2001)
- A novel sarcoidosis risk locus for Europeans on chromo some 11q13.1. (PubMed id 22837380)1 Fischer A....Schreiber S. (2012)
- Protective role of Gipie, a Girdin family protein, in endoplasmic reticulum stress responses in endothelial cells. (PubMed id 21289099)1 Matsushita E....Takahashi M. (2011)
- A human MAP kinase interactome. (PubMed id 20936779)1 Bandyopadhyay S....Ideker T. (2010)
- Quantitative phosphoproteomic analysis of T cell receptor signaling reveals system-wide modulation of protein-protein interactions. (PubMed id 19690332)2 Mayya V.... Han D.K. (2009)
- Human chromosome 11 DNA sequence and analysis including novel gene identification. (PubMed id 16554811)2 Taylor T.D....Sakaki Y. (2006)
- The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PubMed id 15489334)2 Gerhard D.S....Malek J. (2004)
- Analysis of a high-throughput yeast two-hybrid system and its use to predict the function of intracellular proteins encoded within the human MHC class III region. (PubMed id 14667819)1 Lehner B....Sanderson C.M. (2004)
|
External Searches for CCDC88B gene
(in PubMed,
OMIM, and NCBI Bookshelf)
About This Section
|
|
Genome Databases showing CCDC88B gene
(According to
Entrez Gene,
HGNC,
AceView,
euGenes,
Ensembl,
miRBase,
ECgene,
Kegg,
and/or
H-InvDB)
About This Section
|
|
Other Databases showing CCDC88B gene
(According to HUGE)
About This Section
| -- |
Specialized Databases showing CCDC88B gene(According to PharmGKB,
ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL,
Wikipedia and/or GeneReviews via UniProtKB/Swiss-Prot)
About This Section
|
| Name | Description |
| PharmGKB entry for CCDC88B | Pharmacogenomics, SNPs, Pathways |
|
| | |
About This Section
| Patent Information for CCDC88B gene:
Search GeneIP for patents involving CCDC88B
GeneCards and IP:
Japan Patent Office Licenses GeneCards European Patent Office Licenses GeneCards Improving the IP Search
|
Products
for CCDC88B gene(Antibodies, recombinant proteins, and assays from EMD Millipore, R&D Systems, OriGene, QIAGEN, GenScript, Cell Signaling Technology, SABiosciences, Novus Biologicals, Sino Biological, Enzo Life Sciences, Abcam, ProSpec, Uscn, Thermo Fisher Scientific, Gene Editing from DNA2.0, Clones from EMD Millipore, OriGene, GenScript, Sino Biological, DNA2.0, SwitchGear Genomics, Vector BioLabs, Cell lines from GenScript and LifeMap BioReagents, PCR Arrays from SABiosciences, Drugs and/or compounds from EMD Millipore, Tocris Bioscience, and/or
Enzo Life Sciences),
In Situ Hybridization Assays from
Advanced Cell Diagnostics
About This Section
|
 | |
 | |
 |
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| |
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| | | | Search Tocris compounds for CCDC88B |
| |  |  |  |  | | | | |
 |
 |
 |
 | | | CCDC88B Proteins, Antibodies, CLIAs, and ELISAs |
| | | | | Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for CCDC88B |
|  |  |  | | | | Search ThermoFisher Antibodies for CCDC88B |
| | | Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat CCDC88B |
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