MmuINT0008039 @ mm10
Intron Retention
Gene
ENSMUSG00000041828 | Abca8a
Description
ATP-binding cassette, sub-family A (ABC1), member 8a [Source:MGI Symbol;Acc:MGI:2386846]
Coordinates
chr11:110069789-110070488:-
Coord C1 exon
chr11:110070313-110070488
Coord A exon
chr11:110069909-110070312
Coord C2 exon
chr11:110069789-110069908
Length
404 bp
Sequences
Splice sites
5' ss Seq
GAGGTACAA
5' ss Score
5.13
3' ss Seq
TTCCTTTTGTACATGGGTAGGTA
3' ss Score
6.03
Exon sequences
Seq C1 exon
GTTGGGTCACTATCCATAATAACAAACTCTCAGAAATGACTGACTTGGAAAATATCAGCAAGCTCACTGGAGTTTGTCCACAATGCAATGTGCAATTTGACTTCCTCACTGTAAGAGAAAATCTTAGGCTATTTGCTAAAATAAAAGGGATTCAAGCCCACGAAGTGGATAACGAG
Seq A exon
GTACAAGATGTGTTAAACTAACATAAAAATTTAATTTTTTTTGTAAAACACTTATTCCTTTTTACTTTGATTTTGGTTGCATTAACTCATCGACACATCAATATATTAAGGCTGGCTGCAAAAATATGGGAATAAGATACACTCACGTGTAACCTGTGATGTTCTCCTAAATCATTAAATATATTCCTTTCATCTTCACAAATCTTAGATAAGTAATGGAATTTCTTCATGTTCAAATGAGATTGAATTACGAAGAGGTTAATAGATTCCCCCAAGTTGTAGGTCAAGTAAGCATGAAGTCATATAAAACCCAAACAGATAACTCTGCTTGTCATTATTCTTTATTGTGTTGTGTATAAAGACATTTTAGTTATGGTTTGAATGTTCCTTTTGTACATGGGTAG
Seq C2 exon
GTACAAAGAGTTTTGCTGGAATTGGACATGAAAAATACTCAGAATATTCTTGTTCAAAACCTAAGCGGCGGACAGAAGAGAAAGCTGACGTTTGGAATCGCCATTTTAGGAGACCCTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000041828:ENSMUST00000100287:13
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(39.5=100)
A:
NA
C2:
PF0000522=ABC_tran=FE(26.5=100)
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:
TGGGTCACTATCCATAATAACAAACT
R:
CTGAGGGTCTCCTAAAATGGCG
Band lengths:
294-698
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