CCDC88C (coiled-coil domain containing 88C) - Rat Genome Database

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Gene: CCDC88C (coiled-coil domain containing 88C) Sus scrofa
Analyze
Symbol: CCDC88C
Name: coiled-coil domain containing 88C
RGD ID: 13930994
Description: ENCODES a protein that exhibits dynein light intermediate chain binding (inferred); frizzled binding (inferred); G-protein alpha-subunit binding (inferred); INVOLVED IN positive regulation of JNK cascade (ortholog); ASSOCIATED WITH achondrogenesis type IA (ortholog); genetic disease (ortholog); hydrocephalus (ortholog); FOUND IN cell junction (inferred); centrosome (inferred); cytoplasm (inferred); INTERACTS WITH deoxynivalenol
Type: protein-coding
RefSeq Status: MODEL
Previously known as: protein Daple
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 Ensembl7112,917,534 - 113,045,682 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.17112,917,436 - 113,030,442 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.27119,489,813 - 119,618,584 (-)NCBISscrofa10.2Sscrofa10.2susScr3
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

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

Cellular Component
cell junction  (IEA)
centrosome  (IBA,IEA)
cytoplasm  (IBA,IEA)

References
Additional References at PubMed
PMID:22301074   PMID:30032202  


Genomics

Comparative Map Data
CCDC88C
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl7112,917,534 - 113,045,682 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.17112,917,436 - 113,030,442 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.27119,489,813 - 119,618,584 (-)NCBISscrofa10.2Sscrofa10.2susScr3
CCDC88C
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381491,271,323 - 91,417,820 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1491,271,323 - 91,417,844 (-)EnsemblGRCh38hg38GRCh38
GRCh371491,737,667 - 91,884,164 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361490,807,420 - 90,953,886 (-)NCBINCBI36Build 36hg18NCBI36
Celera1471,786,122 - 71,932,885 (-)NCBICelera
Cytogenetic Map14q32.11-q32.12NCBI
HuRef1471,913,832 - 72,060,619 (-)NCBIHuRef
CHM1_11491,675,205 - 91,822,288 (-)NCBICHM1_1
T2T-CHM13v2.01485,496,797 - 85,643,060 (-)NCBIT2T-CHM13v2.0
Ccdc88c
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm3912100,877,778 - 100,995,610 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl12100,877,782 - 100,995,315 (-)EnsemblGRCm39 Ensembl
GRCm3812100,911,519 - 101,029,351 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl12100,911,523 - 101,029,056 (-)EnsemblGRCm38mm10GRCm38
MGSCv3712102,150,910 - 102,267,193 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv3612101,313,750 - 101,430,033 (-)NCBIMGSCv36mm8
Celera12102,139,914 - 102,256,241 (-)NCBICelera
Cytogenetic Map12ENCBI
cM Map1251.11NCBI
Ccdc88c
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr86125,899,337 - 126,019,162 (-)NCBIGRCr8
mRatBN7.26120,169,752 - 120,289,459 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl6120,169,738 - 120,289,555 (-)EnsemblmRatBN7.2 Ensembl
Rnor_6.06124,905,811 - 125,028,011 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl6124,905,808 - 125,027,553 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.06134,125,645 - 134,247,201 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.46125,178,886 - 125,298,359 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.16125,182,632 - 125,302,112 (-)NCBI
Celera6117,696,139 - 117,817,662 (-)NCBICelera
Cytogenetic Map6q32NCBI
Ccdc88c
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0NW_00495543813,585,469 - 13,708,170 (-)NCBIChiLan1.0ChiLan1.0
CCDC88C
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21592,421,170 - 92,567,790 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11491,637,679 - 91,784,296 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01471,897,602 - 72,044,242 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11491,244,434 - 91,389,646 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1491,244,434 - 91,393,715 (-)Ensemblpanpan1.1panPan2
CCDC88C
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1862,123,934 - 62,245,485 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl862,143,029 - 62,245,491 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha861,701,555 - 61,822,949 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0862,395,697 - 62,517,160 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl862,396,575 - 62,517,106 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1862,076,207 - 62,197,551 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0862,125,945 - 62,247,414 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0862,455,092 - 62,576,740 (-)NCBIUU_Cfam_GSD_1.0
Ccdc88c
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440864013,666,825 - 13,780,464 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493648818,289,651 - 18,402,115 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_00493648818,288,504 - 18,402,125 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CCDC88C
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12469,035,317 - 69,185,353 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl2469,034,992 - 69,184,800 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366605356,288,470 - 56,435,028 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Ccdc88c
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462473411,215,357 - 11,336,413 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462473411,215,274 - 11,336,535 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in CCDC88C
5925 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 1 1
Low 10 4 3 4 2 20 2 3 3
Below cutoff 2

Sequence


Reference Sequences
RefSeq Acc Id: ENSSSCT00000002710   ⟹   ENSSSCP00000002641
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl7112,917,534 - 113,045,682 (-)Ensembl
RefSeq Acc Id: ENSSSCT00000041205   ⟹   ENSSSCP00000053768
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl7112,917,534 - 113,045,682 (-)Ensembl
RefSeq Acc Id: ENSSSCT00000062587   ⟹   ENSSSCP00000042942
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl7112,917,534 - 113,045,682 (-)Ensembl
RefSeq Acc Id: ENSSSCT00000079294   ⟹   ENSSSCP00000060324
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl7112,917,448 - 112,928,429 (-)Ensembl
RefSeq Acc Id: ENSSSCT00000092550   ⟹   ENSSSCP00000074896
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl7112,927,984 - 113,045,682 (-)Ensembl
RefSeq Acc Id: ENSSSCT00000094018   ⟹   ENSSSCP00000077844
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl7112,936,096 - 113,045,682 (-)Ensembl
RefSeq Acc Id: ENSSSCT00000100407   ⟹   ENSSSCP00000076956
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl7112,935,563 - 113,045,682 (-)Ensembl
RefSeq Acc Id: ENSSSCT00000102085   ⟹   ENSSSCP00000075033
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl7112,935,100 - 113,045,682 (-)Ensembl
RefSeq Acc Id: ENSSSCT00000105121   ⟹   ENSSSCP00000081117
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl7112,935,696 - 113,045,682 (-)Ensembl
RefSeq Acc Id: ENSSSCT00000106713   ⟹   ENSSSCP00000077178
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl7112,936,096 - 112,976,764 (-)Ensembl
RefSeq Acc Id: XM_021100083   ⟹   XP_020955742
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.17112,917,436 - 113,030,442 (-)NCBI
Sequence:
Reference Protein Sequences
RefSeq Acc Id: XP_020955742   ⟸   XM_021100083
- UniProtKB: F1SD91 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSSSCP00000053768   ⟸   ENSSSCT00000041205
RefSeq Acc Id: ENSSSCP00000002641   ⟸   ENSSSCT00000002710
RefSeq Acc Id: ENSSSCP00000060324   ⟸   ENSSSCT00000079294
RefSeq Acc Id: ENSSSCP00000042942   ⟸   ENSSSCT00000062587
RefSeq Acc Id: ENSSSCP00000074896   ⟸   ENSSSCT00000092550
RefSeq Acc Id: ENSSSCP00000076956   ⟸   ENSSSCT00000100407
RefSeq Acc Id: ENSSSCP00000075033   ⟸   ENSSSCT00000102085
RefSeq Acc Id: ENSSSCP00000077178   ⟸   ENSSSCT00000106713
RefSeq Acc Id: ENSSSCP00000081117   ⟸   ENSSSCT00000105121
RefSeq Acc Id: ENSSSCP00000077844   ⟸   ENSSSCT00000094018
Protein Domains
Calponin-homology (CH)   HOOK N-terminal


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSSSCG00000002440 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
  ENSSSCG00015016494 UniProtKB/TrEMBL
  ENSSSCG00025024429 UniProtKB/TrEMBL
  ENSSSCG00030071739 UniProtKB/TrEMBL
  ENSSSCG00035041380 UniProtKB/TrEMBL
  ENSSSCG00040032956 UniProtKB/TrEMBL
  ENSSSCG00045005238 UniProtKB/TrEMBL
  ENSSSCG00050077040 UniProtKB/TrEMBL
  ENSSSCG00055024858 UniProtKB/TrEMBL
  ENSSSCG00060042232 UniProtKB/TrEMBL
  ENSSSCG00065036333 UniProtKB/TrEMBL
  ENSSSCG00070003340 UniProtKB/TrEMBL
Ensembl Transcript ENSSSCT00000002710 ENTREZGENE
  ENSSSCT00000002710.5 UniProtKB/TrEMBL
  ENSSSCT00000041205.3 UniProtKB/TrEMBL
  ENSSSCT00000062587.3 UniProtKB/TrEMBL
  ENSSSCT00000092550.1 UniProtKB/TrEMBL
  ENSSSCT00000094018.1 UniProtKB/TrEMBL
  ENSSSCT00000100407.1 UniProtKB/TrEMBL
  ENSSSCT00000102085.1 UniProtKB/TrEMBL
  ENSSSCT00000105121.1 UniProtKB/TrEMBL
  ENSSSCT00000106713.1 UniProtKB/TrEMBL
  ENSSSCT00015021927.1 UniProtKB/TrEMBL
  ENSSSCT00015021964.1 UniProtKB/TrEMBL
  ENSSSCT00015021980.1 UniProtKB/TrEMBL
  ENSSSCT00015021998.1 UniProtKB/TrEMBL
  ENSSSCT00015022022.1 UniProtKB/TrEMBL
  ENSSSCT00025033022.1 UniProtKB/TrEMBL
  ENSSSCT00025033076.1 UniProtKB/TrEMBL
  ENSSSCT00030100570.1 UniProtKB/TrEMBL
  ENSSSCT00030100582.1 UniProtKB/TrEMBL
  ENSSSCT00035054996.1 UniProtKB/TrEMBL
  ENSSSCT00035055010.1 UniProtKB/TrEMBL
  ENSSSCT00035055012.1 UniProtKB/TrEMBL
  ENSSSCT00035055015.1 UniProtKB/TrEMBL
  ENSSSCT00035055022.1 UniProtKB/TrEMBL
  ENSSSCT00040044818.1 UniProtKB/TrEMBL
  ENSSSCT00040044872.1 UniProtKB/TrEMBL
  ENSSSCT00045008699.1 UniProtKB/TrEMBL
  ENSSSCT00045008714.1 UniProtKB/TrEMBL
  ENSSSCT00045008741.1 UniProtKB/TrEMBL
  ENSSSCT00045008744.1 UniProtKB/TrEMBL
  ENSSSCT00050105983.1 UniProtKB/TrEMBL
  ENSSSCT00050106018.1 UniProtKB/TrEMBL
  ENSSSCT00055049031.1 UniProtKB/TrEMBL
  ENSSSCT00055049145.1 UniProtKB/TrEMBL
  ENSSSCT00055049374.1 UniProtKB/TrEMBL
  ENSSSCT00055049437.1 UniProtKB/TrEMBL
  ENSSSCT00060057308.1 UniProtKB/TrEMBL
  ENSSSCT00060057310.1 UniProtKB/TrEMBL
  ENSSSCT00065049518.1 UniProtKB/TrEMBL
  ENSSSCT00065049531.1 UniProtKB/TrEMBL
  ENSSSCT00065049533.1 UniProtKB/TrEMBL
  ENSSSCT00065049544.1 UniProtKB/TrEMBL
  ENSSSCT00065049548.1 UniProtKB/TrEMBL
  ENSSSCT00070006389.1 UniProtKB/TrEMBL
  ENSSSCT00070006395.1 UniProtKB/TrEMBL
Gene3D-CATH 1.10.287.1490 UniProtKB/TrEMBL
  1.10.418.10 UniProtKB/TrEMBL
InterPro CH-domain UniProtKB/TrEMBL
  CH_dom_sf UniProtKB/TrEMBL
  HOOK_N UniProtKB/TrEMBL
NCBI Gene CCDC88C ENTREZGENE
PANTHER HOOK PROTEINS UniProtKB/TrEMBL
  PTHR18947:SF31 UniProtKB/TrEMBL
Pfam HOOK_N UniProtKB/TrEMBL
PROSITE PS50021 UniProtKB/TrEMBL
Superfamily-SCOP Hook domain UniProtKB/TrEMBL
UniProt A0A287AGB2_PIG UniProtKB/TrEMBL
  A0A287BB73_PIG UniProtKB/TrEMBL
  A0A4X1SSL8_PIG UniProtKB/TrEMBL
  A0A8D0MTD3_PIG UniProtKB/TrEMBL
  A0A8D0MTZ9_PIG UniProtKB/TrEMBL
  A0A8D0MVT3_PIG UniProtKB/TrEMBL
  A0A8D0Y5P1_PIG UniProtKB/TrEMBL
  A0A8D0ZUL6_PIG UniProtKB/TrEMBL
  A0A8D1A0C4_PIG UniProtKB/TrEMBL
  A0A8D1KQQ3_PIG UniProtKB/TrEMBL
  A0A8D1UAI2_PIG UniProtKB/TrEMBL
  A0A8D1YJW4_PIG UniProtKB/TrEMBL
  A0A8W4F6Z3_PIG UniProtKB/TrEMBL
  A0A8W4F9D2_PIG UniProtKB/TrEMBL
  A0A8W4FCQ1_PIG UniProtKB/TrEMBL
  A0A8W4FEK2_PIG UniProtKB/TrEMBL
  A0A8W4FF65_PIG UniProtKB/TrEMBL
  A0A8W4FNP6_PIG UniProtKB/TrEMBL
  F1SD91 ENTREZGENE, UniProtKB/TrEMBL
VGNC ID VGNC:97917 ENTREZGENE