ABCA15P (ATP binding cassette subfamily A member 15, pseudogene) - Rat Genome Database

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Gene: ABCA15P (ATP binding cassette subfamily A member 15, pseudogene) Homo sapiens
Analyze
Symbol: ABCA15P
Name: ATP binding cassette subfamily A member 15, pseudogene
RGD ID: 2303315
HGNC Page HGNC:34405
Description: Predicted to act upstream of or within hematopoietic progenitor cell differentiation.
Type: ncrna (Ensembl: transcribed_unitary_pseudogene)
RefSeq Status: VALIDATED
Previously known as: CRYM antisense RNA 1; CRYM-AS1; FLJ41766; NCRNA00169
RGD Orthologs
Mouse
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
GRCh381621,300,849 - 21,318,591 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1621,315,911 - 21,339,037 (+)EnsemblGRCh38hg38GRCh38
GRCh371621,312,170 - 21,329,912 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361621,219,671 - 21,237,413 (+)NCBINCBI36Build 36hg18NCBI36
Celera1620,626,473 - 20,644,219 (+)NCBICelera
Cytogenetic Map16p12.2NCBI
HuRef1619,847,411 - 19,865,153 (+)NCBIHuRef
CHM1_11621,399,505 - 21,417,235 (+)NCBICHM1_1
T2T-CHM13v2.01621,236,141 - 21,253,871 (+)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

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:12477932   PMID:14702039   PMID:15489334   PMID:15616553   PMID:16344560   PMID:35414504  


Genomics

Comparative Map Data
ABCA15P
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381621,300,849 - 21,318,591 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1621,315,911 - 21,339,037 (+)EnsemblGRCh38hg38GRCh38
GRCh371621,312,170 - 21,329,912 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361621,219,671 - 21,237,413 (+)NCBINCBI36Build 36hg18NCBI36
Celera1620,626,473 - 20,644,219 (+)NCBICelera
Cytogenetic Map16p12.2NCBI
HuRef1619,847,411 - 19,865,153 (+)NCBIHuRef
CHM1_11621,399,505 - 21,417,235 (+)NCBICHM1_1
T2T-CHM13v2.01621,236,141 - 21,253,871 (+)NCBIT2T-CHM13v2.0
Abca15
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm397119,927,709 - 120,006,925 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl7119,927,893 - 120,006,910 (+)EnsemblGRCm39 Ensembl
GRCm387120,328,486 - 120,407,702 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl7120,328,670 - 120,407,687 (+)EnsemblGRCm38mm10GRCm38
MGSCv377127,472,198 - 127,551,201 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv367120,119,833 - 120,198,836 (+)NCBIMGSCv36mm8
Celera7120,243,686 - 120,322,703 (+)NCBICelera
Cytogenetic Map7F2NCBI
cM Map764.72NCBI


Clinical Variants
Name Type Condition(s) Position(s) Clinical significance
GRCh38/hg38 16p13.3-11.2(chr16:4644892-29170820)x3 copy number gain See cases [RCV000133809] Chr16:4644892..29170820 [GRCh38]
Chr16:4694893..29182141 [GRCh37]
Chr16:4634894..29089642 [NCBI36]
Chr16:16p13.3-11.2		 pathogenic
GRCh38/hg38 16p13.11-12.1(chr16:14954894-28306843)x3 copy number gain See cases [RCV000051828] Chr16:14954894..28306843 [GRCh38]
Chr16:15048751..28318164 [GRCh37]
Chr16:14956252..28225665 [NCBI36]
Chr16:16p13.11-12.1		 pathogenic
GRCh38/hg38 16p12.2(chr16:21299678-22396751)x3 copy number gain See cases [RCV000053116] Chr16:21299678..22396751 [GRCh38]
Chr16:21310999..22408072 [GRCh37]
Chr16:21218500..22315573 [NCBI36]
Chr16:16p12.2		 uncertain significance
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:316
Count of miRNA genes:260
Interacting mature miRNAs:265
Transcripts:ENST00000338573, ENST00000444326, ENST00000561968
Prediction methods:Microtar, 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
Low 323 293 152 43 626 38 1264 126 167 101 410 393 18 438 549 3
Below cutoff 2064 2199 1332 436 897 288 2798 1711 2490 282 1017 1191 150 762 1952 1

Sequence


Reference Sequences
RefSeq Acc Id: ENST00000338573
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl1621,300,849 - 21,317,948 (+)Ensembl
RefSeq Acc Id: ENST00000444326
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl1621,303,247 - 21,318,591 (+)Ensembl
RefSeq Acc Id: ENST00000561968
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl1621,300,881 - 21,316,886 (+)Ensembl
RefSeq Acc Id: ENST00000637983
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl1621,315,911 - 21,339,037 (+)Ensembl
RefSeq Acc Id: NR_026675
RefSeq Status: VALIDATED
Type: NON-CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh381621,300,849 - 21,318,591 (+)NCBI
GRCh371621,312,170 - 21,349,811 (+)NCBI
Celera1620,626,473 - 20,644,219 (+)RGD
HuRef1619,847,411 - 19,865,153 (+)RGD
CHM1_11621,399,505 - 21,417,235 (+)NCBI
T2T-CHM13v2.01621,236,141 - 21,253,871 (+)NCBI
Sequence:
Protein Sequences
GenBank Protein BAG53954 (Get FASTA)   NCBI Sequence Viewer  
  EAW66864 (Get FASTA)   NCBI Sequence Viewer  
Reference Protein Sequences

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-A6NIL9-F1-model_v2 AlphaFold A6NIL9 1-109 view protein structure

Promoters
RGD ID:6793318
Promoter ID:HG_KWN:23225
Type:CpG-Island
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:CD4+TCell_12Hour,   HeLa_S3,   Jurkat,   K562,   Lymphoblastoid,   NB4
Transcripts:NR_026675
Position:
Human AssemblyChrPosition (strand)Source
Build 361621,219,506 - 21,220,006 (+)MPROMDB

Additional Information

Database Acc Id Source(s)
AGR Gene HGNC:34405 AgrOrtholog
COSMIC ABCA15P COSMIC
Ensembl Genes ENSG00000189149 Ensembl
GTEx ENSG00000189149 GTEx
HGNC ID HGNC:34405 ENTREZGENE
Human Proteome Map ABCA15P Human Proteome Map
NCBI Gene 400508 ENTREZGENE
PharmGKB PA164723759 PharmGKB
RNAcentral URS000075ABD8 RNACentral


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2022-06-20 ABCA15P  ATP binding cassette subfamily A member 15, pseudogene  CRYM-AS1  CRYM antisense RNA 1  Symbol and/or name change 19259463 PROVISIONAL
2012-08-21 CRYM-AS1  CRYM antisense RNA 1  CRYM-AS1  CRYM antisense RNA 1 (non-protein coding)  Symbol and/or name change 5135510 APPROVED
2011-09-01 CRYM-AS1  CRYM antisense RNA 1 (non-protein coding)  NCRNA00169  non-protein coding RNA 169  Symbol and/or name change 5135510 APPROVED