MmuINT0008075 @ mm9
Intron Retention
Gene
ENSMUSG00000020620 | Abca8b
Description
ATP-binding cassette, sub-family A (ABC1), member 8b [Source:MGI Symbol;Acc:MGI:1351668]
Coordinates
chr11:109830376-109831190:-
Coord C1 exon
chr11:109831132-109831190
Coord A exon
chr11:109830487-109831131
Coord C2 exon
chr11:109830376-109830486
Length
645 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAAC
5' ss Score
8.14
3' ss Seq
CCTTCTGTTTTCCCTTCCAGACC
3' ss Score
13.15
Exon sequences
Seq C1 exon
AATCAGAAATATTTCAAAAGAATACAAAGGAAAGCCCAATAAAATAGAAGCCTTAAAAG
Seq A exon
GTAAACAACAACAGCAATAATAATATAGTGATAGACTTTTAAATTTAAACATAATTTATTTTACTTTTGATGAGTGGTTCTTGGTGATGTTTTAAATTTAAAATGTTATTTAATTTACATGATAAACTTTATCTTTCAGTACTTTAGTTCTATTTTATAAAACTTCTATAAAAGTTAGAATAAATGTGCTGAAATACAATGTATTTAAAACCTATACTGTGTGATACTGTGTTAGCCTAAGTAGATTTGGAGTCTTGCATCTACAAGGTCAAAGTTTTCTCTTGTACTTCAAAGTACTATGTGTTTTCTTTTTAAAATAAATAAATACTTGAAATTTTAAAAGAGTGCTTATCTTAAAGGACTAATGGCCATGTAGTATTTTATTATTAATTTATTCTTCCATTTGATATTAATAAATATTTTGCATATACAGGGCAACATCAAGGAACCTATGGCTGTAACACTTTTCAGTTATTTTAAATACCAAATTGCATTTTCACAAAGAATATTTTGAAAAAACTATTTATTCAAGGAGGTAAAATAATCTAATTGGCTCCATAGTGGAATTGTGTCATTTTTAGTTATTTTCTTGCTCCTACCTCCTTTTTTTATATCATCCATCTGTCCTTCTGTTTTCCCTTCCAG
Seq C2 exon
ACCTGACGTTGGACATATATGAAGGCCAAATCACAGCAGTACTTGGTCACAGTGGAGCTGGGAAATCAACACTGTTAAATATTCTTAGCGGATTATCTGTTCCTACTAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000020620-Abca8b:NM_013851:11
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.192 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0000522=ABC_tran=PU(1.4=9.5)
A:
NA
C2:
PF0000522=ABC_tran=FE(25.2=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:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: