ABCA11P (ATP binding cassette subfamily A member 11, pseudogene) - Rat Genome Database

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Gene: ABCA11P (ATP binding cassette subfamily A member 11, pseudogene) Homo sapiens
Analyze
Symbol: ABCA11P
Name: ATP binding cassette subfamily A member 11, pseudogene
RGD ID: 1346566
HGNC Page HGNC:31
Description: INTERACTS WITH 3-isobutyl-1-methyl-7H-xanthine; 4,4'-sulfonyldiphenol; antirheumatic drug
Type: pseudo (Ensembl: lncRNA)
RefSeq Status: VALIDATED
Previously known as: ABCA11; atp-binding cassette, sub-family a (abc1), member 11; EST1133530; FLJ14297; FLJ57767; MGC120309; MGC120310; MGC120312; MGC132744; MGC138274
Related Functional Gene: ABCA10  
Latest Assembly: GRCh38 - Human Genome Assembly GRCh38
Position:
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh384425,435 - 474,209 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl4425,773 - 427,882 (-)EnsemblGRCh38hg38GRCh38
GRCh38.p14 Ensembl4425,435 - 474,129 (-)EnsemblGRCh38hg38GRCh38
GRCh374419,224 - 467,998 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 364409,224 - 457,918 (-)NCBINCBI36Build 36hg18NCBI36
Celera4360,935 - 409,700 (-)NCBICelera
Cytogenetic Map4p16.3NCBI
HuRef4390,659 - 439,476 (-)NCBIHuRef
CHM1_14418,857 - 467,792 (-)NCBICHM1_1
T2T-CHM13v2.04418,830 - 467,592 (-)NCBIT2T-CHM13v2.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
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:16344560   PMID:21873635  


Genomics

Variants

.
Variants in ABCA11P
48 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:304
Count of miRNA genes:144
Interacting mature miRNAs:146
Transcripts:ENST00000451020, ENST00000504019, ENST00000507854, ENST00000514396
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.

Markers in Region
SHGC-67596  
Human AssemblyChrPosition (strand)SourceJBrowse
GRCh374421,011 - 421,109UniSTSGRCh37
GRCh371767,170,427 - 67,170,525UniSTSGRCh37
Build 364411,011 - 411,109RGDNCBI36
Celera4362,722 - 362,820RGD
Celera1763,741,960 - 63,742,058UniSTS
Cytogenetic Map4p16.3UniSTS
Cytogenetic Map17q24UniSTS
HuRef4392,446 - 392,544UniSTS
GeneMap99-GB4 RH Map412.72UniSTS
A009Z27  
Human AssemblyChrPosition (strand)SourceJBrowse
GRCh374420,869 - 420,974UniSTSGRCh37
Build 364410,869 - 410,974RGDNCBI36
Celera4362,580 - 362,685RGD
Cytogenetic Map4p16.3UniSTS
HuRef4392,304 - 392,409UniSTS
GeneMap99-GB4 RH Map412.32UniSTS
RH36065  
Human AssemblyChrPosition (strand)SourceJBrowse
GRCh374434,803 - 434,912UniSTSGRCh37
Build 364424,803 - 424,912RGDNCBI36
Celera4376,513 - 376,622RGD
Cytogenetic Map4p16.3UniSTS
HuRef4406,292 - 406,401UniSTS
GeneMap99-GB4 RH Map412.52UniSTS
G33021  
Human AssemblyChrPosition (strand)SourceJBrowse
GRCh374420,869 - 420,974UniSTSGRCh37
Celera4362,580 - 362,685UniSTS
Cytogenetic Map4p16.3UniSTS
HuRef4392,304 - 392,409UniSTS


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 visual system adipose tissue appendage entire extraembryonic component pharyngeal arch
High
Medium 33 10 248 2 27 1 34 11 203 1 61 143 4 1 29 2 2
Low 2378 2357 1406 553 1295 395 4248 2083 3498 398 1382 1443 169 1200 2705 4
Below cutoff 24 570 70 67 566 67 74 101 32 20 15 26 1 4 54

Sequence

Nucleotide Sequences
RefSeq Transcripts NR_002451 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AC092574 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK024359 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK303674 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC036795 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC040413 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC060316 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC065035 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC098116 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC098259 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC098291 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC099730 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC105084 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC112069 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC143677 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH471131 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CP068274 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  DA501191 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  KF457728 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENST00000451020
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl4425,435 - 474,129 (-)Ensembl
RefSeq Acc Id: ENST00000504019
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl4425,773 - 427,882 (-)Ensembl
RefSeq Acc Id: ENST00000507854
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl4425,815 - 474,051 (-)Ensembl
RefSeq Acc Id: ENST00000514396
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl4425,815 - 474,051 (-)Ensembl
RefSeq Acc Id: NR_002451
RefSeq Status: VALIDATED
Type: NON-CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh384425,435 - 474,209 (-)NCBI
GRCh374419,224 - 467,998 (-)RGD
Celera4360,935 - 409,700 (-)RGD
HuRef4390,659 - 439,476 (-)RGD
CHM1_14418,857 - 467,792 (-)NCBI
T2T-CHM13v2.04418,830 - 467,592 (-)NCBI
Sequence:
Protein Sequences
GenBank Protein AAY41037 (Get FASTA)   NCBI Sequence Viewer  
  BAB14895 (Get FASTA)   NCBI Sequence Viewer  
  BAG64671 (Get FASTA)   NCBI Sequence Viewer  
  EAW82667 (Get FASTA)   NCBI Sequence Viewer  
Reference Protein Sequences

Promoters
RGD ID:6815502
Promoter ID:HG_MRA:11703
Type:CpG-Island
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:CD4+TCell,   CD4+TCell_12Hour,   Lymphoblastoid,   NB4
Transcripts:BC105084,   BC112069,   BC143677
Position:
Human AssemblyChrPosition (strand)Source
Build 364457,041 - 457,541 (-)MPROMDB
RGD ID:6802793
Promoter ID:HG_KWN:47615
Type:CpG-Island
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:CD4+TCell,   CD4+TCell_12Hour,   CD4+TCell_2Hour,   HeLa_S3,   Jurkat,   K562,   Lymphoblastoid,   NB4
Transcripts:NR_002451,   UC003GAD.2,   UC003GAE.2,   UC003GAF.2,   UC010IBD.1
Position:
Human AssemblyChrPosition (strand)Source
Build 364457,649 - 458,149 (-)MPROMDB

Additional Information

Database Acc Id Source(s)
COSMIC ABCA11P COSMIC
Ensembl Genes ENSG00000251595 Ensembl
  ENSG00000293360 Ensembl, ENTREZGENE
Ensembl Transcript ENST00000451020 ENTREZGENE
GTEx ENSG00000251595 GTEx
  ENSG00000293360 GTEx
HGNC ID HGNC:31 ENTREZGENE
Human Proteome Map ABCA11P Human Proteome Map
NCBI Gene 79963 ENTREZGENE
PharmGKB PA24375 PharmGKB


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-02-18 ABCA11P  ATP binding cassette subfamily A member 11, pseudogene    ATP-binding cassette, sub-family A (ABC1), member 11, pseudogene  Symbol and/or name change 5135510 APPROVED
2011-07-27 ABCA11P  ATP-binding cassette, sub-family A (ABC1), member 11, pseudogene  ABCA11P  ATP-binding cassette, sub-family A (ABC1), member 11 (pseudogene)  Symbol and/or name change 5135510 APPROVED