MmuINT0008088 @ mm9
Intron Retention
Gene
ENSMUSG00000020620 | Abca8b
Description
ATP-binding cassette, sub-family A (ABC1), member 8b [Source:MGI Symbol;Acc:MGI:1351668]
Coordinates
chr11:109811348-109812050:-
Coord C1 exon
chr11:109811943-109812050
Coord A exon
chr11:109811522-109811942
Coord C2 exon
chr11:109811348-109811521
Length
421 bp
Sequences
Splice sites
5' ss Seq
AAGGTGATA
5' ss Score
4.18
3' ss Seq
CTCCTCTCTCTCCTGGACAGAAC
3' ss Score
8.88
Exon sequences
Seq C1 exon
GATGAAACTATTCATCCTTTAGAAGACCTATGGAAGACTGCATTCTGGCTGATTCTGACCTCCGCTTGCCCTCCTTATATTGCCATGAGCAGTGTCACAGATTATAAG
Seq A exon
GTGATAACGAGTTGTGAGTAACCGGAACTTGAGTTACTTTGTAAATTAGAAGCTGAAAGTATAGTGATTACATGCACACACACACACACACACACTGCAGTTTTTAATTAATCAATTTAAATAACTCCCTATGTTAATTAAATACAATCATGCAGCTATACAAAGTGAAATACAAAATTGAAAAATAAATCAATTCATCTATCTCCAATAGATTTTCAATCTAAAAGGTGTTGAAAATATATAGAGTCATATATAAATCAACTTTTAAATGAACAATTGTTTGAGCAAATACACAAGTGGGAAATATGTTATGAAAATAGTCCAGAGTTATTATAAATAAACATCAACATTAAAATATTCTACAGTTTTTAAAACTCAAGCTGAAGCCACACTTTGTGTCTCTCCTCTCTCTCCTGGACAG
Seq C2 exon
AACAGAGCTTGGTTCCAGCTGCGGGTCTCCGGCCTCTTCCCTTCGGCTTACTGGGTCGGGCAGGCAATGGTGGACATTCCCCTGTACTGCTTTGTCTTCCTCTTCATGTCGTTAATGGACTACCTTTTTCGCTTCCCAGATACCATGTTTTCTATTATAAGCCACGTCATACAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000020620-Abca8b:NM_013851:23
Average complexity
IR-S
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(12.5=100)
A:
NA
C2:
PF126982=ABC2_membrane_3=FE(20.4=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:
CCTTTAGAAGACCTATGGAAGACTGC
R:
TGACGTGGCTTATAATAGAAAACATG
Band lengths:
262-683
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: