MmuINT0008094 @ mm10
Intron Retention
Gene
ENSMUSG00000020620 | Abca8b
Description
ATP-binding cassette, sub-family A (ABC1), member 8b [Source:MGI Symbol;Acc:MGI:1351668]
Coordinates
chr11:109941546-109942357:-
Coord C1 exon
chr11:109942237-109942357
Coord A exon
chr11:109941664-109942236
Coord C2 exon
chr11:109941546-109941663
Length
573 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAGC
5' ss Score
9.85
3' ss Seq
GACATTCTTCTTGTTTCCAGAAG
3' ss Score
7.67
Exon sequences
Seq C1 exon
AATTTCTCCAAGAAACAATGATGTGTATCAAAACCCAGAAGAGCCAGAAGATGAGGATGAAGATGTTCAAATGGAGAGAATGAGAACAGCGAATGCCTTGGTATCCACCAGTTTTGATGAG
Seq A exon
GTAAGCACACAAATTAGCTAGCTTACCAAAAATGCAAATGTGTACTCATTAAAGCAACTGGTCTACCAGACTTATTCTCTAATGATGCTTCTTTTCCTTCATCCTAACAAAAGGAAGTCACTGTTTTATAGTGTGGCCATCATTTTTACATTAAAATGAGCAGACTGAAAGTCAGTGTTTCCAATCCTTAGTATAAACTAAAAAAAGAATACAGGTGAATTAACTCAAATCATGAAGGACTTTGAGAAACTGAGCATGTAGTGACAATTGTCACTGTTTCCAGTGAGAATGTACAGTATTCAACATAAGGCACACTGTCTGGTGCTTTTCGTGTCTTTCTCGTGTTCAGGGAGTCAGGCATGCTCTCTAAAACAATGTGTTTCTTAGTAGATGTCATTGTAAGGGAAGGTCATTGAATACTTTCCGTAGACAAGGGCTAAGATAAGAAAAGAAGTAGATAATGATGGTGCCCACTAGTATCTCTTTGATGCACAGTTAGGGTAGTGTAGGGATTACAGCTTATTCAAAGTCAGTGGCAAGAACAGTCTGATGTGACATTCTTCTTGTTTCCAG
Seq C2 exon
AAGCCAGTCATCATTGCCAGCTGCCTACGCAAAGAATATGCAGGGAAGCAGAAGCATTGCCTTTCCAAGAAGAAGGCCAAGATAGCCACTAGGAATGTCTCGTTTTGTGTCAGGAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000020620:ENSMUST00000020948:29
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.415 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0000522=ABC_tran=PU(7.1=25.0)
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:
TTTCTCCAAGAAACAATGATGTGT
R:
CCTGACACAAAACGAGACATTCC
Band lengths:
233-806
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