MmuINT0007799 @ mm9
Intron Retention
Gene
ENSMUSG00000026944 | Abca2
Description
ATP-binding cassette, sub-family A (ABC1), member 2 [Source:MGI Symbol;Acc:MGI:99606]
Coordinates
chr2:25294587-25295059:+
Coord C1 exon
chr2:25294587-25294767
Coord A exon
chr2:25294768-25294846
Coord C2 exon
chr2:25294847-25295059
Length
79 bp
Sequences
Splice sites
5' ss Seq
CATGTGAGT
5' ss Score
7.83
3' ss Seq
CCCCGCTTACCCCACTCCAGGTC
3' ss Score
7.98
Exon sequences
Seq C1 exon
AGGAGACCCGCGGCATGGAGGAGGAGCCCACCCACCTGCCCTTGGTCGTCTGTGTGGACAAGCTCACCAAGGTCTATAAGAATGACAAGAAGATGGCCTTAAACAAACTGAGCCTCAATCTGTATGAGAATCAGGTGGTCTCTTTCCTAGGCCACAACGGGGCCGGCAAGACCACGACCAT
Seq A exon
GTGAGTGTCTAGGGACAACGAGGAGGGATTAGCTAACGGGAGGATGTGGTGGATTGTGACCCCGCTTACCCCACTCCAG
Seq C2 exon
GTCGATCCTGACTGGACTGTTCCCACCCACGTCGGGCTCAGCCACTATCTATGGGCACGACATCCGCACCGAGATGGATGAGATCCGCAAGAACCTGGGCATGTGCCCACAGCACAACGTGCTCTTTGACCGGCTCACGGTGGAGGAGCACCTCTGGTTCTACTCACGCCTCAAAAGCATGGCACAGGAGGAGATCCGCAAAGAGACGGACAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026944-Abca2:NM_007379:20
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.090 A=NA C2=0.007
Domain overlap (PFAM):
C1:
PF0000522=ABC_tran=PU(18.6=44.3)
A:
NA
C2:
PF0000522=ABC_tran=FE(49.0=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Human
(hg38)
No conservation detected
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGGACAAGCTCACCAAGGTCT
R:
GCCCATAGATAGTGGCTGAGC
Band lengths:
183-262
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: