MmuINT0008099 @ mm10
Intron Retention
Gene
ENSMUSG00000020620 | Abca8b
Description
ATP-binding cassette, sub-family A (ABC1), member 8b [Source:MGI Symbol;Acc:MGI:1351668]
Coordinates
chr11:109937707-109937968:-
Coord C1 exon
chr11:109937893-109937968
Coord A exon
chr11:109937802-109937892
Coord C2 exon
chr11:109937707-109937801
Length
91 bp
Sequences
Splice sites
5' ss Seq
AAGGTATAT
5' ss Score
7.84
3' ss Seq
GGATGTCTCTCTTGTTATAGCTG
3' ss Score
7.29
Exon sequences
Seq C1 exon
GTTGGCAGATGCGCTCAAGCTGCAGGACCAGCTGAAGTCTCCTGTGAAGACGCTGTCAGAGGGAGTGAAGAGAAAG
Seq A exon
GTATATGCAGGGCTCAGGAGGTAGAGCTTCGAGCACACCTCAGGGAGGCACACTTGAGGTGGTGCATCATGGGATGTCTCTCTTGTTATAG
Seq C2 exon
CTGTGCTTCGTGCTGAGCATCCTGGGGAACCCATCTATATTGCTTCTAGATGAGCCGTCCACTGGGCTGGATCCTGAGGGGCAGCAGCAAATATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000020620:ENSMUST00000020948:33
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=0.031
Domain overlap (PFAM):
C1:
PF0000522=ABC_tran=FE(17.7=100)
A:
NA
C2:
PF0000522=ABC_tran=PD(14.2=62.5)
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:
TTGGCAGATGCGCTCAAGC
R:
CATATTTGCTGCTGCCCCTCA
Band lengths:
170-261
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