SNORA3B (small nucleolar RNA, H/ACA box 3B) - Rat Genome Database

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Gene: SNORA3B (small nucleolar RNA, H/ACA box 3B) Homo sapiens
Analyze
Symbol: SNORA3B
Name: small nucleolar RNA, H/ACA box 3B
RGD ID: 1602571
HGNC Page HGNC:32638
Description: Predicted to be involved in RNA processing. Predicted to be located in nucleolus.
Type: snorna
RefSeq Status: PROVISIONAL
Previously known as: ACA3-2; SNORA45; SNORA45B
RGD Orthologs
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
GRCh38118,685,439 - 8,685,569 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl118,685,439 - 8,685,569 (+)EnsemblGRCh38hg38GRCh38
GRCh37118,706,986 - 8,707,116 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36118,663,562 - 8,663,692 (+)NCBINCBI36Build 36hg18NCBI36
Celera118,824,618 - 8,824,748 (+)NCBICelera
Cytogenetic Map11p15.4NCBI
HuRef118,374,977 - 8,375,107 (+)NCBIHuRef
CHM1_1118,705,902 - 8,706,032 (+)NCBICHM1_1
T2T-CHM13v2.0118,767,193 - 8,767,323 (+)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. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
2. 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:22658674   PMID:29117863  


Genomics

Comparative Map Data
SNORA3B
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38118,685,439 - 8,685,569 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl118,685,439 - 8,685,569 (+)EnsemblGRCh38hg38GRCh38
GRCh37118,706,986 - 8,707,116 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36118,663,562 - 8,663,692 (+)NCBINCBI36Build 36hg18NCBI36
Celera118,824,618 - 8,824,748 (+)NCBICelera
Cytogenetic Map11p15.4NCBI
HuRef118,374,977 - 8,375,107 (+)NCBIHuRef
CHM1_1118,705,902 - 8,706,032 (+)NCBICHM1_1
T2T-CHM13v2.0118,767,193 - 8,767,323 (+)NCBIT2T-CHM13v2.0
Snora3B
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81172,976,556 - 172,976,686 (+)NCBIGRCr8
mRatBN7.21163,541,736 - 163,541,866 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1163,541,736 - 163,541,866 (+)EnsemblmRatBN7.2 Ensembl
Rnor_6.0 Ensembl1174,134,781 - 174,134,911 (+)NCBIRnor6.0rn6Rnor6.0
Cytogenetic Map1q33NCBI


Clinical Variants
Name Type Condition(s) Position(s) Clinical significance
GRCh38/hg38 11p15.5-13(chr11:202758-31726224)x3 copy number gain See cases [RCV000053613] Chr11:202758..31726224 [GRCh38]
Chr11:202758..31747772 [GRCh37]
Chr11:192758..31704348 [NCBI36]
Chr11:11p15.5-13		 pathogenic
NM_000990.4(RPL27A):c.40C>T (p.His14Tyr) single nucleotide variant Malignant melanoma [RCV000069730] Chr11:8683238 [GRCh38]
Chr11:8704785 [GRCh37]
Chr11:8661361 [NCBI36]
Chr11:11p15.4		 not provided
GRCh38/hg38 11p15.5-15.1(chr11:446754-18904742)x3 copy number gain See cases [RCV000133997] Chr11:446754..18904742 [GRCh38]
Chr11:446754..18926289 [GRCh37]
Chr11:436754..18882865 [NCBI36]
Chr11:11p15.5-15.1		 pathogenic
GRCh38/hg38 11p15.5-15.4(chr11:61793-10727969)x3 copy number gain See cases [RCV000139987] Chr11:61793..10727969 [GRCh38]
Chr11:61793..10749516 [GRCh37]
Chr11:51793..10706092 [NCBI36]
Chr11:11p15.5-15.4		 pathogenic
GRCh38/hg38 11p15.4(chr11:7995676-10437205)x3 copy number gain See cases [RCV000143490] Chr11:7995676..10437205 [GRCh38]
Chr11:8017223..10458752 [GRCh37]
Chr11:7973799..10415328 [NCBI36]
Chr11:11p15.4		 uncertain significance
GRCh37/hg19 11p15.5-q25(chr11:230616-134938470) copy number gain See cases [RCV000511729] Chr11:230616..134938470 [GRCh37]
Chr11:11p15.5-q25		 pathogenic
GRCh37/hg19 11p15.5-12(chr11:230615-37698540)x3 copy number gain See cases [RCV000511561] Chr11:230615..37698540 [GRCh37]
Chr11:11p15.5-12		 pathogenic
GRCh37/hg19 11p15.5-q25(chr11:230616-134938470)x3 copy number gain See cases [RCV000510881] Chr11:230616..134938470 [GRCh37]
Chr11:11p15.5-q25		 pathogenic
GRCh37/hg19 11p15.5-14.3(chr11:230615-25584362)x3 copy number gain See cases [RCV000512225] Chr11:230615..25584362 [GRCh37]
Chr11:11p15.5-14.3		 pathogenic
GRCh37/hg19 11p15.5-13(chr11:230615-31995219)x3 copy number gain See cases [RCV000512477] Chr11:230615..31995219 [GRCh37]
Chr11:11p15.5-13		 pathogenic
GRCh37/hg19 11p15.4(chr11:7837338-9295428)x3 copy number gain not provided [RCV000683357] Chr11:7837338..9295428 [GRCh37]
Chr11:11p15.4		 uncertain significance
GRCh37/hg19 11p15.5-15.1(chr11:230615-17099213)x3 copy number gain not provided [RCV000683372] Chr11:230615..17099213 [GRCh37]
Chr11:11p15.5-15.1		 pathogenic
GRCh37/hg19 11p15.4(chr11:6969013-9257231)x3 copy number gain not provided [RCV000683360] Chr11:6969013..9257231 [GRCh37]
Chr11:11p15.4		 pathogenic
GRCh37/hg19 11p15.5-15.4(chr11:230615-9704511)x3 copy number gain not provided [RCV000683369] Chr11:230615..9704511 [GRCh37]
Chr11:11p15.5-15.4		 pathogenic
GRCh37/hg19 11p15.5-q25(chr11:198510-134934063)x3 copy number gain not provided [RCV000737348] Chr11:198510..134934063 [GRCh37]
Chr11:11p15.5-q25		 pathogenic
GRCh37/hg19 11p15.5-q25(chr11:70864-134938470)x3 copy number gain not provided [RCV000749874] Chr11:70864..134938470 [GRCh37]
Chr11:11p15.5-q25		 pathogenic
GRCh37/hg19 11p15.4(chr11:8691402-8933010)x3 copy number gain not provided [RCV000737416] Chr11:8691402..8933010 [GRCh37]
Chr11:11p15.4		 benign
GRCh37/hg19 11p15.5-15.3(chr11:193146-12643136) copy number gain Silver-Russell syndrome 1 [RCV000767567] Chr11:193146..12643136 [GRCh37]
Chr11:11p15.5-15.3		 pathogenic
GRCh37/hg19 11p15.5-13(chr11:235934-33826995)x3 copy number gain not provided [RCV001006372] Chr11:235934..33826995 [GRCh37]
Chr11:11p15.5-13		 pathogenic
GRCh37/hg19 11p15.5-14.2(chr11:230615-26881146)x3 copy number gain See cases [RCV002286351] Chr11:230615..26881146 [GRCh37]
Chr11:11p15.5-14.2		 pathogenic
GRCh37/hg19 11p15.5-15.4(chr11:230615-8821443)x3 copy number gain Russell-Silver syndrome [RCV003444025] Chr11:230615..8821443 [GRCh37]
Chr11:11p15.5-15.4		 pathogenic
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:164
Count of miRNA genes:162
Interacting mature miRNAs:164
Transcripts:ENST00000391305
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.

Markers in Region
D11S4394  
Human AssemblyChrPosition (strand)SourceJBrowse
GRCh37118,706,338 - 8,707,332UniSTSGRCh37
GRCh376153,603,443 - 153,603,652UniSTSGRCh37
Build 366153,645,136 - 153,645,345RGDNCBI36
Celera118,823,970 - 8,824,964UniSTS
Celera6154,337,915 - 154,338,124RGD
Cytogenetic Map6q25.2UniSTS
Cytogenetic Map11p15UniSTS
Cytogenetic Map11p15.4UniSTS
HuRef118,374,329 - 8,375,323UniSTS
HuRef6151,166,741 - 151,166,950UniSTS
RP_L27A_1  
Human AssemblyChrPosition (strand)SourceJBrowse
GRCh37118,706,338 - 8,706,604UniSTSGRCh37
Build 36118,662,914 - 8,663,180RGDNCBI36
Celera118,823,970 - 8,824,236RGD
Cytogenetic Map11p15UniSTS
Cytogenetic Map11p15.4UniSTS
HuRef118,374,329 - 8,374,595UniSTS
GeneMap99-GB4 RH Map1139.89UniSTS
Whitehead-RH Map1145.8UniSTS
Whitehead-YAC Contig Map11 UniSTS
NCBI RH Map1124.0UniSTS
MARC_1767-1768:991931306:1  
Human AssemblyChrPosition (strand)SourceJBrowse
GRCh376153,603,427 - 153,603,664UniSTSGRCh37
GRCh37118,706,326 - 8,707,348UniSTSGRCh37
Build 366153,645,120 - 153,645,357RGDNCBI36
Celera118,823,958 - 8,824,980UniSTS
Celera6154,337,899 - 154,338,136RGD
HuRef6151,166,725 - 151,166,962UniSTS
HuRef118,374,317 - 8,375,339UniSTS


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 30 26 61 27 317 27 67 9 26 18 176 82 4 17
Low 2308 2432 1584 546 1424 389 3737 1495 2839 346 1235 1485 169 1183 2259 4
Below cutoff 65 372 47 26 84 25 331 462 632 25 18 12 1 13 318

Sequence


Reference Sequences
RefSeq Acc Id: ENST00000391305
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl118,685,439 - 8,685,569 (+)Ensembl
RefSeq Acc Id: NR_002977
RefSeq Status: PROVISIONAL
Type: NON-CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38118,685,439 - 8,685,569 (+)NCBI
GRCh37118,706,986 - 8,707,116 (+)RGD
Build 36118,663,562 - 8,663,692 (+)NCBI Archive
Celera118,824,618 - 8,824,748 (+)RGD
HuRef118,374,977 - 8,375,107 (+)ENTREZGENE
CHM1_1118,705,902 - 8,706,032 (+)NCBI
T2T-CHM13v2.0118,767,193 - 8,767,323 (+)NCBI
Sequence:

Additional Information

Database Acc Id Source(s)
COSMIC SNORA3B COSMIC
Ensembl Genes ENSG00000212607 Ensembl, ENTREZGENE
Ensembl Transcript ENST00000391305 ENTREZGENE
GTEx ENSG00000212607 GTEx
HGNC ID HGNC:32638 ENTREZGENE
Human Proteome Map SNORA3B Human Proteome Map
NCBI Gene 677826 ENTREZGENE
OMIM 611333 OMIM
RNAcentral URS0000451E99 RNACentral


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2015-11-17 SNORA3B  small nucleolar RNA, H/ACA box 3B  SNORA45B  small nucleolar RNA, H/ACA box 45B  Symbol and/or name change 5135510 APPROVED
2014-09-17 SNORA45B  small nucleolar RNA, H/ACA box 45B  SNORA45  small nucleolar RNA, H/ACA box 45  Symbol and/or name change 5135510 APPROVED