SNORA12 (small nucleolar RNA, H/ACA box 12) - Rat Genome Database

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Gene: SNORA12 (small nucleolar RNA, H/ACA box 12) Homo sapiens
Analyze
Symbol: SNORA12
Name: small nucleolar RNA, H/ACA box 12
RGD ID: 1602596
HGNC Page HGNC:32600
Description: Predicted to be involved in RNA processing. Predicted to be located in nucleolus.
Type: snorna
RefSeq Status: VALIDATED
Previously known as: U108
RGD Orthologs
Mouse
Rat
Dog
Alliance Orthologs
More Info more info ...
Allele / Splice: See ClinVar data
Latest Assembly: GRCh38 - Human Genome Assembly GRCh38
Position:
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh3810100,237,156 - 100,237,302 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl10100,237,156 - 100,237,302 (-)EnsemblGRCh38hg38GRCh38
GRCh3710101,996,913 - 101,997,059 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 3610101,986,903 - 101,987,049 (-)NCBINCBI36Build 36hg18NCBI36
Celera1095,734,870 - 95,735,016 (-)NCBICelera
Cytogenetic Map10q24.31NCBI
HuRef1095,625,872 - 95,626,018 (-)NCBIHuRef
CHM1_110102,281,605 - 102,281,751 (-)NCBICHM1_1
T2T-CHM13v2.010101,121,412 - 101,121,558 (-)NCBIT2T-CHM13v2.0
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
nucleolus  (IEA)

References

References - curated
# Reference Title Reference Citation
1. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:16361266   PMID:16381836   PMID:19446021   PMID:21103663   PMID:29848166  


Genomics

Comparative Map Data
SNORA12
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh3810100,237,156 - 100,237,302 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl10100,237,156 - 100,237,302 (-)EnsemblGRCh38hg38GRCh38
GRCh3710101,996,913 - 101,997,059 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 3610101,986,903 - 101,987,049 (-)NCBINCBI36Build 36hg18NCBI36
Celera1095,734,870 - 95,735,016 (-)NCBICelera
Cytogenetic Map10q24.31NCBI
HuRef1095,625,872 - 95,626,018 (-)NCBIHuRef
CHM1_110102,281,605 - 102,281,751 (-)NCBICHM1_1
T2T-CHM13v2.010101,121,412 - 101,121,558 (-)NCBIT2T-CHM13v2.0
Gm24336
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391944,102,418 - 44,102,563 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1944,102,418 - 44,102,563 (-)EnsemblGRCm39 Ensembl
GRCm381944,113,979 - 44,114,124 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1944,113,979 - 44,114,124 (-)EnsemblGRCm38mm10GRCm38
Cytogenetic Map19C3NCBI
Snora12
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81252,950,605 - 252,950,747 (-)NCBIGRCr8
mRatBN7.21243,001,398 - 243,001,540 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1243,001,398 - 243,001,540 (-)EnsemblmRatBN7.2 Ensembl
Rnor_6.0 Ensembl1263,890,686 - 263,890,828 (-)NCBIRnor6.0rn6Rnor6.0
Cytogenetic Map1q54NCBI
LOC119866653
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Dog10K_Boxer_Tasha2813,191,652 - 13,191,799 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.02813,477,108 - 13,477,255 (-)NCBIROS_Cfam_1.0
UMICH_Zoey_3.12813,023,905 - 13,024,052 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02813,061,989 - 13,062,136 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02813,196,300 - 13,196,447 (-)NCBIUU_Cfam_GSD_1.0


Clinical Variants
Name Type Condition(s) Position(s) Clinical significance
GRCh38/hg38 10q23.33-25.3(chr10:95112607-116776637)x3 copy number gain See cases [RCV000050747] Chr10:95112607..116776637 [GRCh38]
Chr10:96872364..118383651 [GRCh37]
Chr10:96862354..118526138 [NCBI36]
Chr10:10q23.33-25.3		 pathogenic
GRCh38/hg38 10q24.2-24.31(chr10:99333940-100475567)x3 copy number gain See cases [RCV000051647] Chr10:99333940..100475567 [GRCh38]
Chr10:101093697..102235324 [GRCh37]
Chr10:101083687..102225314 [NCBI36]
Chr10:10q24.2-24.31		 uncertain significance
GRCh38/hg38 10q23.33-24.32(chr10:93181201-101356779)x1 copy number loss See cases [RCV000052565] Chr10:93181201..101356779 [GRCh38]
Chr10:94940958..103116536 [GRCh37]
Chr10:94930948..103106526 [NCBI36]
Chr10:10q23.33-24.32		 pathogenic
GRCh38/hg38 10q23.31-26.3(chr10:91048545-133620674)x3 copy number gain Developmental Delay and additional significant developmental and morphological phenotypes referred for genetic testing [RCV000053560]|Developmental delay and additional significant developmental and morphological phenotypes referred for genetic testing [RCV000053560]|See cases [RCV000053560] Chr10:91048545..133620674 [GRCh38]
Chr10:92808302..135434178 [GRCh37]
Chr10:92798282..135284168 [NCBI36]
Chr10:10q23.31-26.3		 pathogenic
GRCh38/hg38 10q24.31-26.3(chr10:100194215-132432797)x3 copy number gain See cases [RCV000053564] Chr10:100194215..132432797 [GRCh38]
Chr10:101953972..134246301 [GRCh37]
Chr10:101943962..134096291 [NCBI36]
Chr10:10q24.31-26.3		 pathogenic
GRCh38/hg38 10q24.2-24.31(chr10:99386632-100648221)x3 copy number gain See cases [RCV000135650] Chr10:99386632..100648221 [GRCh38]
Chr10:101146389..102407978 [GRCh37]
Chr10:101136379..102397968 [NCBI36]
Chr10:10q24.2-24.31		 uncertain significance
GRCh37/hg19 10q24.2-26.3(chr10:100780957-135427143)x3 copy number gain See cases [RCV000446733] Chr10:100780957..135427143 [GRCh37]
Chr10:10q24.2-26.3		 pathogenic
GRCh37/hg19 10q23.1-25.1(chr10:85557432-105804295)x1 copy number loss Poly (ADP-Ribose) polymerase inhibitor response [RCV000431909] Chr10:85557432..105804295 [GRCh37]
Chr10:10q23.1-25.1		 pathogenic|drug response
GRCh37/hg19 10p15.3-q26.3(chr10:93297-135378918)x3 copy number gain See cases [RCV000448750] Chr10:93297..135378918 [GRCh37]
Chr10:10p15.3-q26.3		 pathogenic
GRCh37/hg19 10p15.3-q26.3(chr10:100027-135427143) copy number gain See cases [RCV000511389] Chr10:100027..135427143 [GRCh37]
Chr10:10p15.3-q26.3		 pathogenic|uncertain significance
GRCh37/hg19 10q23.32-26.3(chr10:93283493-135427143)x3 copy number gain See cases [RCV000510972] Chr10:93283493..135427143 [GRCh37]
Chr10:10q23.32-26.3		 pathogenic
GRCh37/hg19 10p15.3-q26.3(chr10:100027-135427143)x3 copy number gain See cases [RCV000510861] Chr10:100027..135427143 [GRCh37]
Chr10:10p15.3-q26.3		 pathogenic
GRCh37/hg19 10q11.21-26.3(chr10:42347406-135534747)x1 copy number loss Poly (ADP-Ribose) polymerase inhibitor response [RCV000626438] Chr10:42347406..135534747 [GRCh37]
Chr10:10q11.21-26.3		 drug response
GRCh37/hg19 10q23.33-26.3(chr10:94346520-135427143)x3 copy number gain not provided [RCV000683291] Chr10:94346520..135427143 [GRCh37]
Chr10:10q23.33-26.3		 pathogenic
GRCh37/hg19 10p15.3-q26.3(chr10:98087-135477883)x3 copy number gain not provided [RCV000749465] Chr10:98087..135477883 [GRCh37]
Chr10:10p15.3-q26.3		 pathogenic
GRCh37/hg19 10p15.3-q26.3(chr10:73232-135524321)x3 copy number gain not provided [RCV000749464] Chr10:73232..135524321 [GRCh37]
Chr10:10p15.3-q26.3		 pathogenic
NC_000010.10:g.(?_99344461)_(105992004_?)dup duplication not provided [RCV003107322] Chr10:99344461..105992004 [GRCh37]
Chr10:10q24.2-25.1		 uncertain significance
GRCh37/hg19 10q24.31(chr10:101932457-102392841)x3 copy number gain not provided [RCV001006350] Chr10:101932457..102392841 [GRCh37]
Chr10:10q24.31		 uncertain significance
GRCh37/hg19 10p13-q26.3(chr10:12829206-135427143) copy number loss Distal 10q deletion syndrome [RCV003319583] Chr10:12829206..135427143 [GRCh37]
Chr10:10p13-q26.3		 pathogenic
GRCh37/hg19 10p14-q26.3(chr10:11138692-135427143) copy number gain Distal trisomy 10q [RCV003319593] Chr10:11138692..135427143 [GRCh37]
Chr10:10p14-q26.3		 pathogenic
GRCh37/hg19 10q23.33-26.3(chr10:95078198-135427143)x3 copy number gain not specified [RCV003986893] Chr10:95078198..135427143 [GRCh37]
Chr10:10q23.33-26.3		 pathogenic
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:164
Count of miRNA genes:158
Interacting mature miRNAs:159
Transcripts:ENST00000391162
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 (GRCh38)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
2314551GLUCO52_HGlucose level QTL 52 (human)1.4Glucose level1077605006103605006Human


Expression

RNA-SEQ Expression

adipose tissue
alimentary part of gastrointestinal system
appendage
circulatory system
ectoderm
endocrine system
endoderm
entire extraembryonic component
exocrine system
hemolymphoid system
hepatobiliary system
integumental system
mesenchyme
mesoderm
musculoskeletal system
nervous system
pharyngeal arch
renal system
reproductive system
respiratory system
sensory system
visual system
971 1760 1841 1442 3882 1237 1847 5 394 1514 258 1870 4893 4645 51 2904 1 669 1499 1379 149 1

Sequence


Ensembl Acc Id: ENST00000391162
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl10100,237,156 - 100,237,302 (-)Ensembl
RefSeq Acc Id: NR_002954
RefSeq Status: VALIDATED
Type: NON-CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh3810100,237,156 - 100,237,302 (-)NCBI
GRCh3710101,996,913 - 101,997,059 (-)RGD
Build 3610101,986,903 - 101,987,049 (-)NCBI Archive
Celera1095,734,870 - 95,735,016 (-)RGD
HuRef1095,625,872 - 95,626,018 (-)ENTREZGENE
CHM1_110102,281,605 - 102,281,751 (-)NCBI
T2T-CHM13v2.010101,121,412 - 101,121,558 (-)NCBI
Sequence:

Additional Information

Database Acc Id Source(s)
COSMIC SNORA12 COSMIC
Ensembl Genes ENSG00000212464 Ensembl, ENTREZGENE
Ensembl Transcript ENST00000391162 ENTREZGENE
GTEx ENSG00000212464 GTEx
HGNC ID HGNC:32600 ENTREZGENE
Human Proteome Map SNORA12 Human Proteome Map
NCBI Gene 677800 ENTREZGENE
OMIM 611330 OMIM
PharmGKB PA144596334 PharmGKB
RNAcentral URS000002084A RNACentral