RBM12B-AS1 (RBM12B antisense RNA 1) - Rat Genome Database

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Gene: RBM12B-AS1 (RBM12B antisense RNA 1) Homo sapiens
Analyze
Symbol: RBM12B-AS1
Name: RBM12B antisense RNA 1
RGD ID: 1602216
HGNC Page HGNC
Description: INTERACTS WITH 2-hydroxypropanoic acid; benzo[a]pyrene; cisplatin
Type: ncrna
RefSeq Status: VALIDATED
Also known as: C8orf39; PRO1905
Allele / Splice: See ClinVar data
Latest Assembly: GRCh38 - Human Genome Assembly GRCh38
Position:
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl893,740,121 - 93,740,773 (+)EnsemblGRCh38hg38GRCh38
GRCh38893,740,111 - 93,740,819 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh37894,752,339 - 94,753,047 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36894,820,534 - 94,822,735 (+)NCBINCBI36hg18NCBI36
Celera890,938,400 - 90,939,108 (+)NCBI
Cytogenetic Map8q22.1NCBI
HuRef889,959,870 - 89,960,578 (+)NCBIHuRef
CHM1_1894,792,627 - 94,793,335 (+)NCBICHM1_1
JBrowse: View Region in Genome Browser (JBrowse)
Model


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

References - curated
1. RGD automated import pipeline for gene-chemical interactions

Genomics

Position Markers
RH103674  
Human AssemblyChrPosition (strand)SourceJBrowse
GRCh37894,752,615 - 94,752,758UniSTSGRCh37
Build 36894,821,791 - 94,821,934RGDNCBI36
Celera890,938,676 - 90,938,819RGD
Cytogenetic Map8q22.1UniSTS
HuRef889,960,146 - 89,960,289UniSTS
GeneMap99-GB4 RH Map8434.04UniSTS
G31112  
Human AssemblyChrPosition (strand)SourceJBrowse
GRCh37894,752,752 - 94,752,898UniSTSGRCh37
Build 36894,821,928 - 94,822,074RGDNCBI36
Celera890,938,813 - 90,938,959RGD
Cytogenetic Map8q22.1UniSTS
HuRef889,960,283 - 89,960,429UniSTS

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:133
Count of miRNA genes:128
Interacting mature miRNAs:132
Transcripts:ENST00000391680
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 16 7 2 1 40 1 11 7 33 9 41 57 1 6
Low 2141 2138 1310 299 987 138 3833 1872 2451 116 1173 1302 168 1097 2503 2
Below cutoff 174 689 167 128 581 130 444 295 1107 49 43 85 1 103 260 2

Sequence


Reference Sequences
RefSeq Acc Id: ENST00000623283
RefSeq Status:
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p13 Ensembl893,740,121 - 93,740,773 (+)Ensembl
RefSeq Acc Id: NR_027259
RefSeq Status: VALIDATED
Type: NON-CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38893,740,111 - 93,740,819 (+)NCBI
GRCh37894,752,339 - 94,753,047 (+)RGD
Celera890,938,400 - 90,939,108 (+)RGD
HuRef889,959,870 - 89,960,578 (+)RGD
CHM1_1894,792,627 - 94,793,335 (+)NCBI
Sequence:
Protein Sequences
GenBank Protein AAF71092 (Get FASTA)   NCBI Sequence Viewer  
  Q9P1G2 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences

Promoters
RGD ID:6806534
Promoter ID:HG_KWN:61707
Type:CpG-Island
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:CD4+TCell,   HeLa_S3,   Jurkat,   Lymphoblastoid
Transcripts:NR_027259
Position:
Human AssemblyChrPosition (strand)Source
Build 36894,820,531 - 94,821,822 (+)MPROMDB

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 8q22.1(chr8:93038175-95667782)x1 copy number loss See cases [RCV000136519] Chr8:93038175..95667782 [GRCh38]
Chr8:94050403..96680010 [GRCh37]
Chr8:94119579..96749186 [NCBI36]
Chr8:8q22.1
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 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 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 8q21.13-22.1(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
GRCh38/hg38 8q21.3-22.1(chr8:92283179-95786443)x1 copy number loss See cases [RCV000054265] Chr8:92283179..95786443 [GRCh38]
Chr8:93295407..96798671 [GRCh37]
Chr8:93364583..96867847 [NCBI36]
Chr8:8q21.3-22.1
pathogenic
GRCh38/hg38 8q21.3-22.1(chr8:92287062-95786443)x1 copy number loss See cases [RCV000054277] Chr8:92287062..95786443 [GRCh38]
Chr8:93299290..96798671 [GRCh37]
Chr8:93368466..96867847 [NCBI36]
Chr8:8q21.3-22.1
pathogenic
GRCh38/hg38 8q22.1(chr8:92755532-97792132)x1 copy number loss See cases [RCV000054278] Chr8:92755532..97792132 [GRCh38]
Chr8:93767760..98804360 [GRCh37]
Chr8:93836936..98873536 [NCBI36]
Chr8:8q22.1
pathogenic

Additional Information

Database Acc Id Source(s)
COSMIC RBM12B-AS1 COSMIC
Ensembl Genes ENSG00000279331 Ensembl, ENTREZGENE
Ensembl Transcript ENST00000623283 ENTREZGENE
GTEx ENSG00000279331 GTEx
HGNC ID HGNC:28818 ENTREZGENE
Human Proteome Map RBM12B-AS1 Human Proteome Map
NCBI Gene 55472 ENTREZGENE
PharmGKB PA142672358 PharmGKB
RNAcentral URS000075B0FA RNACentral
UniProt Q9P1G2 ENTREZGENE, UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2012-08-21 RBM12B-AS1  RBM12B antisense RNA 1  RBM12B-AS1  RBM12B antisense RNA 1 (non-protein coding)  Symbol and/or name change 5135510 APPROVED
2012-04-17 RBM12B-AS1  RBM12B antisense RNA 1 (non-protein coding)  C8orf39  chromosome 8 open reading frame 39  Symbol and/or name change 5135510 APPROVED