MmuINT0008098 @ mm10
Intron Retention
Gene
ENSMUSG00000020620 | Abca8b
Description
ATP-binding cassette, sub-family A (ABC1), member 8b [Source:MGI Symbol;Acc:MGI:1351668]
Coordinates
chr11:109937893-109938599:-
Coord C1 exon
chr11:109938439-109938599
Coord A exon
chr11:109937969-109938438
Coord C2 exon
chr11:109937893-109937968
Length
470 bp
Sequences
Splice sites
5' ss Seq
AAGGTACAT
5' ss Score
7.87
3' ss Seq
GTTCTGCTGTTTCTCTTTAGGTT
3' ss Score
12.33
Exon sequences
Seq C1 exon
GTGTTACTGAAAGGGAGCAGAGAAGGGGACACCCCGGGGTTCCTGGGGTACTGTCCTCAGGAGAATGCTCTGTGGCCCAACCTCACTGTGAAGGAGCACCTGGAGATATTTGCTGCAGTGAGGGGCTTGCGCAAAAGTCACGCTGCAGTCGCCATCACAAG
Seq A exon
GTACATGAGTGGGGGTGCACTTAGAACAGGAGGAGGTCAGGGAGAAAGTGGGTGACAGCATTTGCAGAAAACTTGGGGTGAAATGCTCAAGACGCTGGGCAGATTTAAAATTAGGAATTAGTTTTCCTGTTTGGGGCGGGCATTATTTGTTTTTCCCCAGTCATTAAACATGGAAAAGGGGGAATATATTGGTAAAATTTATTGAAAAATACAAAATTTTAATGTATTGATCATAGATTAACTATTTGGATTCTATGACATGATAATGTTTGAGAAGGGCTAACCTCAGCCAAGAAGATCACCTTTTCCCCACTAACACACACACACACACACGCACACACACACACAAGCTTCAGAATTCCATCTATTGGCCCCACTCCCCAATCTCGCCCAGGCTCATTGCCCCAGCTTCCCATTATCTATCTTCACTGAGTAGAAGATGGTGATGATGTTCTGCTGTTTCTCTTTAG
Seq C2 exon
GTTGGCAGATGCGCTCAAGCTGCAGGACCAGCTGAAGTCTCCTGTGAAGACGCTGTCAGAGGGAGTGAAGAGAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000020620:ENSMUST00000020948:32
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.037 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0000522=ABC_tran=FE(37.6=100)
A:
NA
C2:
PF0000522=ABC_tran=FE(17.7=100)
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:
GTGTTACTGAAAGGGAGCAGAGA
R:
TCTTCACTCCCTCTGACAGCG
Band lengths:
232-702
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