MmuINT0008068 @ mm10
Intron Retention
Gene
ENSMUSG00000041828 | Abca8a
Description
ATP-binding cassette, sub-family A (ABC1), member 8a [Source:MGI Symbol;Acc:MGI:2386846]
Coordinates
chr11:110083310-110084265:-
Coord C1 exon
chr11:110084162-110084265
Coord A exon
chr11:110083537-110084161
Coord C2 exon
chr11:110083310-110083536
Length
625 bp
Sequences
Splice sites
5' ss Seq
GAAGTGAGT
5' ss Score
7.97
3' ss Seq
TCATTGATATCTTTGTTTAGGTC
3' ss Score
8.9
Exon sequences
Seq C1 exon
CTCATTGTCATTCCTATGGAGAGATCATTTATTGTGGCCTTTCAGAATTCTGGAGAGATGGGTTTGTGGCTCTTCAAGCTGCCATTAACGCTGCCATCATAGAA
Seq A exon
GTGAGTGTAAATGTCTGATGAAAATTAATCCTACTCAGTTTTGTGAACATGTCAGTAGACAGCTATGTTCTTTCATTCTCTCACTATCAGTTACTATTTCATGATGATTTACTATGCACCTATCCACATTTCACCAAAGTAAAGTTCACCAAAGTGGCCACATTACCAGTTAGAGTAGAATAACAGCACCATGGACAGAATAAGACTTTTTTCTCTAGGAATCAGTCCTCTTAGGGAGACAGACACATAATCACATGATTATTAAAATAGAAAACACACGTTATCATGGAATGCTTGTGTCTGTAAAGGAACACAGAATTCTCTGCTTAGATGGAAGGATTCCTATTAAAGAGATCCTTATCCCTATCACTGTGGGAAGTGTATCTACCTTATATAATAGAGAACGATGTTCCACGAGAAGTGAACAGACAATGATAAACATGAAGTTGATAAAACTTGGAGTAATGTGGGCCGACCAGGATGAGAGATTTGACTCTAGAATTTAAGTAACCGAGTTACAGAACATGTGAGAAGACACTCGGGCTAACTTCCAATCCAGACAAGTCAGTTATATCTTCCAGGGAAACAGGATGCTGTTTGTGTCTTCATTGATATCTTTGTTTAG
Seq C2 exon
GTCACAACAAATCACTCAGTGATGGAAGAGATGATGTCACTTACCGGAAAATACATCAAGATAGATTCTTTCGTTGGGCAAGAAGGGACAACGACAGACTGCTTCCTTTTTTTCTGTATCATTCGTTTCTCCCCACTTACCTATTATATCTCAGCTGGTGTTACAAGAGAAAGGAAAAAGATGAAGGGCTTGATGGCAGTGATGGGCCTTCGGGATTCAGCATTCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000041828:ENSMUST00000100287:5
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:
PF126982=ABC2_membrane_3=FE(8.7=100)
A:
NA
C2:
PF126982=ABC2_membrane_3=FE(19.3=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTCATTGTCATTCCTATGGAGAGA
R:
CAGAATGCTGAATCCCGAAGGC
Band lengths:
331-956
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