CADM2-AS2 (CADM2 antisense RNA 2) - Rat Genome Database

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Gene: CADM2-AS2 (CADM2 antisense RNA 2) Homo sapiens
Analyze
Symbol: CADM2-AS2
Name: CADM2 antisense RNA 2
RGD ID: 6481314
HGNC Page HGNC:41247
Description: INTERACTS WITH aflatoxin B1
Type: ncrna (Ensembl: lncRNA)
RefSeq Status: PREDICTED
Previously known as: RP11-341J3.1
Allele / Splice: See ClinVar data
Latest Assembly: GRCh38 - Human Genome Assembly GRCh38
Position:
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38385,799,987 - 85,828,050 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl385,799,987 - 85,828,050 (-)EnsemblGRCh38hg38GRCh38
GRCh37385,849,137 - 85,877,200 (-)NCBIGRCh37GRCh37hg19GRCh37
Cytogenetic Map3p12.1NCBI
HuRef385,862,520 - 85,890,601 (-)NCBIHuRef
CHM1_1385,801,224 - 85,829,281 (-)NCBICHM1_1
T2T-CHM13v2.0385,871,825 - 85,899,857 (-)NCBIT2T-CHM13v2.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
aflatoxin B1  (EXP)

References
Additional References at PubMed
PMID:11329013   PMID:22832960  


Genomics

Variants

.
Variants in CADM2-AS2
2 total Variants

Clinical Variants
Name Type Condition(s) Position(s) Clinical significance
GRCh38/hg38 3p12.3-11.1(chr3:76764260-89682935)x1 copy number loss See cases [RCV000135700] Chr3:76764260..89682935 [GRCh38]
Chr3:76813411..89732085 [GRCh37]
Chr3:76896101..89814775 [NCBI36]
Chr3:3p12.3-11.1		 likely pathogenic
GRCh38/hg38 3p14.3-11.1(chr3:57140424-90259960)x1 copy number loss See cases [RCV000139626] Chr3:57140424..90259960 [GRCh38]
Chr3:57174452..90309110 [GRCh37]
Chr3:57149492..90391800 [NCBI36]
Chr3:3p14.3-11.1		 pathogenic
GRCh38/hg38 3p13-11.1(chr3:73824871-90453699)x1 copy number loss See cases [RCV000141881] Chr3:73824871..90453699 [GRCh38]
Chr3:73874022..90502849 [GRCh37]
Chr3:73956712..90585539 [NCBI36]
Chr3:3p13-11.1		 pathogenic
GRCh38/hg38 3p12.3-11.1(chr3:74649382-89495681)x1 copy number loss See cases [RCV000143665] Chr3:74649382..89495681 [GRCh38]
Chr3:74698533..89544831 [GRCh37]
Chr3:74781223..89627521 [NCBI36]
Chr3:3p12.3-11.1		 pathogenic
GRCh38/hg38 3p12.2-11.2(chr3:80320584-87468216)x3 copy number gain See cases [RCV000051499] Chr3:80320584..87468216 [GRCh38]
Chr3:80369734..87517366 [GRCh37]
Chr3:80452424..87600056 [NCBI36]
Chr3:3p12.2-11.2		 uncertain significance
GRCh38/hg38 3p12.1(chr3:85269738-86273143)x3 copy number gain See cases [RCV000051500] Chr3:85269738..86273143 [GRCh38]
Chr3:85318888..86322293 [GRCh37]
Chr3:85401578..86404983 [NCBI36]
Chr3:3p12.1		 uncertain significance
GRCh38/hg38 3p12.1(chr3:85774706-86793566)x3 copy number gain Developmental Delay and additional significant developmental and morphological phenotypes referred for genetic testing [RCV000051501]|Developmental delay and additional significant developmental and morphological phenotypes referred for genetic testing [RCV000051501]|See cases [RCV000051501] Chr3:85774706..86793566 [GRCh38]
Chr3:85823856..86842716 [GRCh37]
Chr3:85906546..86925406 [NCBI36]
Chr3:3p12.1		 uncertain significance
GRCh38/hg38 3p12.2-11.1(chr3:82912987-90179222)x1 copy number loss See cases [RCV000051542] Chr3:82912987..90179222 [GRCh38]
Chr3:82962138..90228372 [GRCh37]
Chr3:83044828..90311062 [NCBI36]
Chr3:3p12.2-11.1		 pathogenic
GRCh38/hg38 3p12.2-11.1(chr3:83366150-88146360)x1 copy number loss Developmental Delay and additional significant developmental and morphological phenotypes referred for genetic testing [RCV000053959]|Developmental delay and additional significant developmental and morphological phenotypes referred for genetic testing [RCV000053959]|See cases [RCV000053959] Chr3:83366150..88146360 [GRCh38]
Chr3:83415301..88195510 [GRCh37]
Chr3:83497991..88278200 [NCBI36]
Chr3:3p12.2-11.1		 uncertain significance
GRCh38/hg38 3p12.1(chr3:85714723-86559429)x1 copy number loss See cases [RCV000053960] Chr3:85714723..86559429 [GRCh38]
Chr3:85763873..86608579 [GRCh37]
Chr3:85846563..86691269 [NCBI36]
Chr3:3p12.1		 uncertain significance
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:190
Count of miRNA genes:186
Interacting mature miRNAs:189
Transcripts:ENST00000467225
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.


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 1
Low 5 4 2 2 2 58 2 61 6 4 9 2 57 1
Below cutoff 257 143 184 28 70 26 538 126 1268 31 129 137 6 145 415 1

Sequence


Reference Sequences
RefSeq Acc Id: ENST00000467225
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl385,799,987 - 85,828,050 (-)Ensembl
RefSeq Acc Id: NR_046752
RefSeq Status: PREDICTED
Type: NON-CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38385,799,987 - 85,828,050 (-)NCBI
GRCh37385,849,137 - 85,877,200 (-)NCBI
HuRef385,862,520 - 85,890,601 (-)NCBI
CHM1_1385,801,224 - 85,829,281 (-)NCBI
T2T-CHM13v2.0385,871,825 - 85,899,857 (-)NCBI
Sequence:

Additional Information

Database Acc Id Source(s)
COSMIC CADM2-AS2 COSMIC
Ensembl Genes ENSG00000241648 Ensembl, ENTREZGENE
Ensembl Transcript ENST00000467225 ENTREZGENE
GTEx ENSG00000241648 GTEx
HGNC ID HGNC:41247 ENTREZGENE
Human Proteome Map CADM2-AS2 Human Proteome Map
NCBI Gene CADM2-AS2 ENTREZGENE
RNAcentral URS0000180A34 RNACentral


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2012-08-21 CADM2-AS2  CADM2 antisense RNA 2  CADM2-AS2  CADM2 antisense RNA 2 (non-protein coding)  Symbol and/or name change 5135510 APPROVED