HsaINT0000438 @ hg38
Intron Retention
Gene
ENSG00000154263 | ABCA10
Description
ATP binding cassette subfamily A member 10 [Source:HGNC Symbol;Acc:HGNC:30]
Coordinates
chr17:69153305-69153546:-
Coord C1 exon
chr17:69153471-69153546
Coord A exon
chr17:69153400-69153470
Coord C2 exon
chr17:69153305-69153399
Length
71 bp
Sequences
Splice sites
5' ss Seq
AAGGTATGG
5' ss Score
9.26
3' ss Seq
GGCTGTTCCTTGCATTGCAGCTG
3' ss Score
8.15
Exon sequences
Seq C1 exon
ATTGGTGGAAGCTCTTAAGCTCCAGGAACAACTTAAGGCTCCTGTGAAAACTCTATCAGAGGGAATAAAGAGAAAG
Seq A exon
GTATGGGCCAGGCTCGGGGTTTCCCTGTGCACCCATGGCTGGGTGCCGACGGGCTGTTCCTTGCATTGCAG
Seq C2 exon
CTGTGCTTTGTGCTGAGCATCCTGGGGAACCCATCAGTGGTGCTTCTAGATGAGCCGTTCACCGGGATGGACCCCGAGGGGCAGCAGCAAATGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000154263:ENST00000269081:34
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=FE(17.0=100)
A:
NA
C2:
PF0000522=ABC_tran=PD(13.6=62.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCTCTTAAGCTCCAGGAACAACT
R:
ACATTTGCTGCTGCCCCTC
Band lengths:
160-231
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