C8orf88 (chromosome 8 open reading frame 88) - Rat Genome Database

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Gene: C8orf88 (chromosome 8 open reading frame 88) Homo sapiens
Analyze
Symbol: C8orf88
Name: chromosome 8 open reading frame 88
RGD ID: 7409763
HGNC Page HGNC
Description: Predicted to have eukaryotic initiation factor 4E binding activity. Predicted to be involved in negative regulation of translational initiation. Predicted to localize to cytoplasm; INTERACTS WITH avobenzone; cisplatin; dorsomorphin.
Type: protein-coding
RefSeq Status: VALIDATED
Also known as: uncharacterized protein C8orf88; uncharacterized protein LOC100127983
RGD Orthologs
Mouse
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Allele / Splice: See ClinVar data
Latest Assembly: GRCh38 - Human Genome Assembly GRCh38
Position:
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl890,958,471 - 90,985,238 (-)EnsemblGRCh38hg38GRCh38
GRCh38890,958,471 - 90,985,393 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh37891,970,699 - 91,997,621 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36892,039,504 - 92,066,661 (-)NCBINCBI36hg18NCBI36
Celera888,165,437 - 88,192,235 (-)NCBI
Cytogenetic Map8q21.3NCBI
HuRef887,180,628 - 87,207,406 (-)NCBIHuRef
CHM1_1892,011,369 - 92,038,131 (-)NCBICHM1_1
JBrowse: View Region in Genome Browser (JBrowse)
Model


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

Biological Process

Cellular Component
cytoplasm  (IBA)

Molecular Function

References

References - curated
1. RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:16344560   PMID:20379614   PMID:21873635  


Genomics

Comparative Map Data
C8orf88
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl890,958,471 - 90,985,238 (-)EnsemblGRCh38hg38GRCh38
GRCh38890,958,471 - 90,985,393 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh37891,970,699 - 91,997,621 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36892,039,504 - 92,066,661 (-)NCBINCBI36hg18NCBI36
Celera888,165,437 - 88,192,235 (-)NCBI
Cytogenetic Map8q21.3NCBI
HuRef887,180,628 - 87,207,406 (-)NCBIHuRef
CHM1_1892,011,369 - 92,038,131 (-)NCBICHM1_1
Gm11837
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39414,929,908 - 14,953,030 (+)NCBIGRCm39mm39
GRCm39 Ensembl414,929,908 - 14,953,030 (+)Ensembl
GRCm38414,929,828 - 14,953,031 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl414,929,908 - 14,953,030 (+)EnsemblGRCm38mm10GRCm38
MGSCv37414,857,829 - 14,892,537 (+)NCBIGRCm37mm9NCBIm37
MGSCv36414,857,055 - 14,880,594 (+)NCBImm8
Celera414,731,411 - 14,754,640 (+)NCBICelera
Cytogenetic Map4A2NCBI
LOC100912373
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2528,330,167 - 28,355,691 (+)NCBI
Rnor_6.0 Ensembl528,480,023 - 28,505,432 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.0528,480,029 - 28,505,430 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.0533,157,211 - 33,182,625 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4529,376,159 - 29,425,936 (+)NCBIRGSC3.4rn4RGSC3.4
Celera527,579,345 - 27,604,972 (+)NCBICelera
Cytogenetic Map5q13NCBI
CUNH8orf88
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0NW_0049554177,738,254 - 7,758,867 (-)NCBIChiLan1.0ChiLan1.0
C8H8orf88
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.1889,574,235 - 89,601,304 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl889,574,235 - 89,601,304 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v0887,621,492 - 87,648,665 (-)NCBIMhudiblu_PPA_v0panPan3
C29H8orf88
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12936,330,352 - 36,366,252 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2936,331,661 - 36,363,951 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2936,482,637 - 36,520,735 (-)NCBI
ROS_Cfam_1.02936,531,568 - 36,569,653 (-)NCBI
UMICH_Zoey_3.12936,551,773 - 36,590,224 (-)NCBI
UNSW_CanFamBas_1.02936,533,526 - 36,571,601 (-)NCBI
UU_Cfam_GSD_1.02936,971,809 - 37,009,991 (-)NCBI
CUNH8orf88
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440530343,181,336 - 43,201,951 (+)NCBI
SpeTri2.0NW_0049365444,589,206 - 4,611,369 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
C4H8orf88
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl445,923,486 - 46,092,151 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1445,923,468 - 45,984,591 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
CUNH8orf88
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1886,028,535 - 86,051,130 (-)NCBI
ChlSab1.1 Ensembl886,025,153 - 86,050,548 (-)Ensembl
CUNH8orf88
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_004624744989,076 - 1,022,044 (+)NCBI

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:124
Count of miRNA genes:117
Interacting mature miRNAs:121
Transcripts:ENST00000517562
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.


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 exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system sensory system adipose tissue appendage entire extraembryonic component
High
Medium 1683 2074 673 12 511 12 2726 1211 723 89 1113 959 4 887 1651
Low 634 880 832 397 1309 239 1499 846 2921 295 263 575 161 317 1014 4
Below cutoff 68 33 191 186 107 187 125 130 69 29 60 48 5 122 2

Sequence


Reference Sequences
RefSeq Acc Id: ENST00000517562   ⟹   ENSP00000454561
RefSeq Status:
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p13 Ensembl890,958,471 - 90,985,238 (-)Ensembl
RefSeq Acc Id: NM_001190972   ⟹   NP_001177901
RefSeq Status: VALIDATED
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38890,958,471 - 90,985,238 (-)NCBI
GRCh37891,970,706 - 91,997,485 (-)NCBI
HuRef887,180,628 - 87,207,406 (-)NCBI
CHM1_1892,011,369 - 92,038,131 (-)NCBI
Sequence:
RefSeq Acc Id: NM_001363275   ⟹   NP_001350204
RefSeq Status: VALIDATED
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38890,958,471 - 90,985,393 (-)NCBI
Protein Sequences
Protein RefSeqs NP_001177901 (Get FASTA)   NCBI Sequence Viewer  
  NP_001350204 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EAW91671 (Get FASTA)   NCBI Sequence Viewer  
  P0DMB2 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: NP_001177901   ⟸   NM_001190972
- UniProtKB: P0DMB2 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: NP_001350204   ⟸   NM_001363275
RefSeq Acc Id: ENSP00000454561   ⟸   ENST00000517562


Clinical Variants
Name Type Condition(s) Position(s) Clinical significance
GRCh38/hg38 8q21.3-24.23(chr8:86300584-137022587)x3 copy number gain See cases [RCV000135621] Chr8:86300584..137022587 [GRCh38]
Chr8:87312813..138034830 [GRCh37]
Chr8:87381929..138104012 [NCBI36]
Chr8:8q21.3-24.23
pathogenic|likely pathogenic
GRCh38/hg38 8q13.1-22.1(chr8:66171669-93505509)x3 copy number gain See cases [RCV000137050] Chr8:66171669..93505509 [GRCh38]
Chr8:67083904..94517737 [GRCh37]
Chr8:67246458..94586913 [NCBI36]
Chr8:8q13.1-22.1
pathogenic
GRCh38/hg38 8p23.3-q24.3(chr8:241605-145054781)x3 copy number gain See cases [RCV000138643] Chr8:241605..145054781 [GRCh38]
Chr8:191605..146280167 [GRCh37]
Chr8:181605..146250971 [NCBI36]
Chr8:8p23.3-q24.3
pathogenic
GRCh38/hg38 8q21.3-24.3(chr8:87931152-145068712)x3 copy number gain See cases [RCV000138551] Chr8:87931152..145068712 [GRCh38]
Chr8:88943380..146294098 [GRCh37]
Chr8:89012496..146264902 [NCBI36]
Chr8:8q21.3-24.3
pathogenic
GRCh38/hg38 8q21.13-24.3(chr8:77480050-145068712)x3 copy number gain See cases [RCV000139036] Chr8:77480050..145068712 [GRCh38]
Chr8:78392286..146294098 [GRCh37]
Chr8:78554841..146264902 [NCBI36]
Chr8:8q21.13-24.3
pathogenic
GRCh38/hg38 8q11.1-24.3(chr8:46031340-139285494)x3 copy number gain See cases [RCV000139539] Chr8:46031340..139285494 [GRCh38]
Chr8:46942962..140297737 [GRCh37]
Chr8:47062127..140366919 [NCBI36]
Chr8:8q11.1-24.3
pathogenic
GRCh38/hg38 8p23.3-q24.3(chr8:208048-145070385)x3 copy number gain See cases [RCV000141808] Chr8:208048..145070385 [GRCh38]
Chr8:158048..146295771 [GRCh37]
Chr8:148048..146266575 [NCBI36]
Chr8:8p23.3-q24.3
pathogenic
GRCh38/hg38 8p21.3-q24.3(chr8:21291522-145070385)x3 copy number gain See cases [RCV000142021] Chr8:21291522..145070385 [GRCh38]
Chr8:21149033..146295771 [GRCh37]
Chr8:21193313..146266575 [NCBI36]
Chr8:8p21.3-q24.3
pathogenic
GRCh38/hg38 8p23.3-q24.3(chr8:226452-145068712)x3 copy number gain See cases [RCV000142858] Chr8:226452..145068712 [GRCh38]
Chr8:176452..146294098 [GRCh37]
Chr8:166452..146264902 [NCBI36]
Chr8:8p23.3-q24.3
pathogenic
GRCh38/hg38 8q21.13-24.3(chr8:78614077-145054634)x3 copy number gain See cases [RCV000142597] Chr8:78614077..145054634 [GRCh38]
Chr8:79526312..146280020 [GRCh37]
Chr8:79688867..146250824 [NCBI36]
Chr8:8q21.13-24.3
pathogenic
GRCh38/hg38 8q21.3(chr8:90543310-91144982)x1 copy number loss See cases [RCV000143683] Chr8:90543310..91144982 [GRCh38]
Chr8:91555538..92157210 [GRCh37]
Chr8:91624714..92226386 [NCBI36]
Chr8:8q21.3
likely benign|uncertain significance
GRCh38/hg38 8p23.3-q24.3(chr8:241530-145054634)x3 copy number gain See cases [RCV000148092] Chr8:241530..145054634 [GRCh38]
Chr8:191530..146280020 [GRCh37]
Chr8:181530..146250824 [NCBI36]
Chr8:8p23.3-q24.3
pathogenic
GRCh38/hg38 8q21.2-24.3(chr8:85765999-145070385)x3 copy number gain See cases [RCV000143659] Chr8:85765999..145070385 [GRCh38]
Chr8:86778228..146295771 [GRCh37]
Chr8:86863079..146266575 [NCBI36]
Chr8:8q21.2-24.3
pathogenic
GRCh38/hg38 8p23.3-q24.3(chr8:241530-145049449)x3 copy number gain See cases [RCV000051206] Chr8:241530..145049449 [GRCh38]
Chr8:191530..146274835 [GRCh37]
Chr8:181530..146245639 [NCBI36]
Chr8:8p23.3-q24.3
pathogenic
GRCh38/hg38 8q21.2-22.1(chr8:85835757-93610142)x3 copy number gain Developmental Delay and additional significant developmental and morphological phenotypes referred for genetic testing [RCV000053676]|Developmental delay and additional significant developmental and morphological phenotypes referred for genetic testing [RCV000053676]|See cases [RCV000053676] Chr8:85835757..93610142 [GRCh38]
Chr8:86847986..94622370 [GRCh37]
Chr8:86917086..94691546 [NCBI36]
Chr8:8q21.2-22.1
pathogenic
GRCh38/hg38 8p23.3-q24.3(chr8:241530-145054634)x3 copy number gain See cases [RCV000053602] Chr8:241530..145054634 [GRCh38]
Chr8:191530..146280020 [GRCh37]
Chr8:181530..146250824 [NCBI36]
Chr8:8p23.3-q24.3
pathogenic
GRCh38/hg38 8p23.3-q24.3(chr8:244417-145054775)x3 copy number gain Developmental Delay and additional significant developmental and morphological phenotypes referred for genetic testing [RCV000053604]|Developmental delay and additional significant developmental and morphological phenotypes referred for genetic testing [RCV000053604]|See cases [RCV000053604] Chr8:244417..145054775 [GRCh38]
Chr8:194417..146280161 [GRCh37]
Chr8:184417..146250965 [NCBI36]
Chr8:8p23.3-q24.3
pathogenic
GRCh38/hg38 8q21.13-21.3(chr8:77765431-91839285)x1 copy number loss See cases [RCV000054261] Chr8:77765431..91839285 [GRCh38]
Chr8:78677666..92851513 [GRCh37]
Chr8:78840221..92920689 [NCBI36]
Chr8:8q21.13-21.3
pathogenic
GRCh38/hg38 8q21.13-22.1(chr8:78672463-95366868)x1 copy number loss See cases [RCV000054262] Chr8:78672463..95366868 [GRCh38]
Chr8:79584698..96379096 [GRCh37]
Chr8:79747253..96448272 [NCBI36]
Chr8:8q21.13-22.1
pathogenic
GRCh38/hg38 8q21.3-22.1(chr8:90940996-94538343)x1 copy number loss See cases [RCV000054263] Chr8:90940996..94538343 [GRCh38]
Chr8:91953224..95550571 [GRCh37]
Chr8:92022400..95619747 [NCBI36]
Chr8:8q21.3-22.1
pathogenic

Additional Information

Database Acc Id Source(s)
AGR Gene HGNC:44672 AgrOrtholog
COSMIC C8orf88 COSMIC
Ensembl Genes ENSG00000253250 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Protein ENSP00000454561 ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENST00000517562 ENTREZGENE, UniProtKB/Swiss-Prot
GTEx ENSG00000253250 GTEx
HGNC ID HGNC:44672 ENTREZGENE
Human Proteome Map C8orf88 Human Proteome Map
KEGG Report hsa:100127983 UniProtKB/Swiss-Prot
NCBI Gene C8orf88 ENTREZGENE
PharmGKB PA166123669 PharmGKB
UniProt CH088_HUMAN UniProtKB/Swiss-Prot, ENTREZGENE