MmuINT0008062 @ mm10
Intron Retention
Gene
ENSMUSG00000041828 | Abca8a
Description
ATP-binding cassette, sub-family A (ABC1), member 8a [Source:MGI Symbol;Acc:MGI:2386846]
Coordinates
chr11:110030281-110030954:-
Coord C1 exon
chr11:110030860-110030954
Coord A exon
chr11:110030401-110030859
Coord C2 exon
chr11:110030281-110030400
Length
459 bp
Sequences
Splice sites
5' ss Seq
GTGGTGAGG
5' ss Score
6.13
3' ss Seq
TTCTTCTCTTGACAATATAGGCA
3' ss Score
5.82
Exon sequences
Seq C1 exon
CTGTGCTTTGTGCTGAGCATCCTGGGGAACCCTTCTGTGGTACTTCTGGATGAGCCATCCACCGGGATGGACCCCGAGGGGCAGCAGCAAATGTG
Seq A exon
GTGAGGATCTACCGCTCTCATGGTGGTAGGGAGTTCATGAATTGTGTCAGTATTGTTAAACAAACATAAATAAATGTGGTCAACACCATCCATATCCCTAAAAACTATTATTTTGGGAGAAAACGTACTTATGTTTCCTGGTGGTTTACAATCAACTTCCATGAAGGAAAATTAAGCTTAGGAGAATTGAATCCTTTTGTTCGGTCTCATAGACAGTCCCTTTCTACTCAGAATGTTTGCTCTCAATCATCCTTCTTCTAAGTGTTTTCTCTTGACAGCCTCTGCTGTGTCACCAGTGTTTCTCTAGCAATCGACTTGACAGCCCTCTTCCTCCGTGCCTCCATCTTGCTTGGTCTGCATTGATTATTTCTCATCTCTGCCTCGTGGCATCTCCTCTCTCCTTTGTCCAGAAGAGTCGGGGGACTTCTGTTCATCACAGTTCTTCTCTTGACAATATAG
Seq C2 exon
GCAGGCTATCCAGGCCACCTTTTCAAACACAGAACGGGGCGCCCTCCTGACCACCCATTACATGGCAGAGGCTGAGGCTGTGTGTGACCGCGTGGCCATCATGGTGTCTGGGAGGCTGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000041828:ENSMUST00000100287:34
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.219 A=NA C2=0.005
Domain overlap (PFAM):
C1:
PF0000522=ABC_tran=PD(14.2=62.5)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGTGCTTTGTGCTGAGCA
R:
CTCAGCCTCCCAGACACCAT
Band lengths:
215-674
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Ribosome-engaged transcriptomes of neuronal types
- Neural differentiation time course
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types