HsaINT0000418 @ hg38
Intron Retention
Gene
ENSG00000154263 | ABCA10
Description
ATP binding cassette subfamily A member 10 [Source:HGNC Symbol;Acc:HGNC:30]
Coordinates
chr17:69192563-69193248:-
Coord C1 exon
chr17:69193110-69193248
Coord A exon
chr17:69192654-69193109
Coord C2 exon
chr17:69192563-69192653
Length
456 bp
Sequences
Splice sites
5' ss Seq
CTGGTGATT
5' ss Score
3.02
3' ss Seq
GAATCTTCCTTTCTACTCAGATA
3' ss Score
7.64
Exon sequences
Seq C1 exon
GTTTTGCTGCTAGATGAACCAACTGCTGGATTGGATCCCTTTTCAAGACACCGAGTGTGGAGCCTCCTGAAGGAGCATAAAGTAGACCGACTTATCCTCTTCAGTACCCAATTCATGGATGAGGCTGACATCTTGGCTG
Seq A exon
GTGATTCTTGGCTTCTTTATTCCAACTAGTTATTTAAGGATTTAACATGAGAGTTATTTTTCATAGCCTGTTTTCAAAAGAAGAAAATCTTGTTTGCAGTTTATTTGCAGAAGCCCATTTCAAGCCTCCACATGCCATTGGCTACAACAGGTCACATGGGGTGTAACCCTGCAAAGTTACATGGCAAAGTATGTGGACAAAGGAAGAGGTGAAGAATCAGGCCATCCTTGGAAAGTTTTGAGGCACTGGATTAGCTATGGGGAATGCAGTGAATTTCTGAGGCCTGTTTCACAATAGGCATGGGGATTAGAAATGATACTGCACCCAGGGGCTTAATGATATTACAGTTGTATTGATATTACAAATTTCATTCAGTGTTTTAGTATCCAAAGTAGAGAATATACCATATAAGGAATTACTCTTCACATAATTTTTTGAATCTTCCTTTCTACTCAG
Seq C2 exon
ATAGGAAAGTATTTCTGTCTAATGGGAAGTTGAAATGTGCAGGATCATCTTTGTTTCTGAAGCGAAAGTGGGGTATTGGATATCATTTAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000154263:ENST00000269081:16
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0000522=ABC_tran=PD(5.4=17.0)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTTTTGCTGCTAGATGAACCAACT
R:
CTTAAATGATATCCAATACCCCACTT
Band lengths:
230-686
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Genotype-Tissue Expression Project (GTEx)
- Autistic and control brains
- Pre-implantation embryo development