MmuINT0007540 @ mm9
Intron Retention
Gene
ENSMUSG00000015243 | Abca1
Description
ATP-binding cassette, sub-family A (ABC1), member 1 [Source:MGI Symbol;Acc:MGI:99607]
Coordinates
chr4:53140469-53141734:-
Coord C1 exon
chr4:53141593-53141734
Coord A exon
chr4:53140588-53141592
Coord C2 exon
chr4:53140469-53140587
Length
1005 bp
Sequences
Splice sites
5' ss Seq
CATGTAAGT
5' ss Score
8.31
3' ss Seq
TCTTCTTATTCCCTTTGCAGCGT
3' ss Score
11.62
Exon sequences
Seq C1 exon
GCCACTTTCCGAATAAAGCCATGCCGTCTGCAGGAACCCTCCCCTGGGTACAGGGGATTATCTGTAATGCCAACAACCCCTGCTTCCGTTATCCAACTCCCGGCGAGGCTCCCGGTGTTGTTGGAAACTTTAACAAGTCCAT
Seq A exon
GTAAGTACCAGATCGGGTTTTCTTTCCCAAACTTGCCAGTTAATACTTATCCTTTCCTTCTTGGAGAGGTTTGCATGAGAAGTCTGCAGAATGAATGAAGGGGGAATTGCCACCAGGATTTAAGACCGTGGGATTTAGGAGTCACTGTGATTATGGGATCGAAAGCTGTCTACTCAGTCAGTGCTCTGGGAGACTGAGCAAGCTCCATCTGATCTACTCACTCAGATCTCTGCTGTCCCTTTGAAGTGGACACTTCTAGGAGCCAGAGCCACTGCGCAGGAAGGGTCTGGGTTCTCCAGCAGCTCAGAGCCCAAGGCAGGAGTGTCCTGTCCTCTGCTCTCAGGTCATTGCTCTGACCCCTGAAATGACTGCAGTGTCTCTGCTGTTGACTTGTCTTTCTGTCCCTGAGTGGGAGCTGCCCGAGAGCATGATGGTGCTTCCTTAGTGTCTGTGTTCCTGGCTCAGATGCTGGGATGCTGGATATAAAATGCTCCTTCCAGACGAGATGTTGAGGATCCCCCAGATGTGCAAAGTCACAGAGTTAGAGCAGACCAGGGACTGTAGGATGTGCTGCTGGTTGGAGATGGTGCTGCGGTTGGGACAAGCAGGGCCACATTGCATAACCAAAATGTTAAAAACATGTCAGACTGTTGGTATACAAATGCATACGATCAATTGAAAATTCATTACTGGATATGCATTCCTGTTATATGTGTTCCTAATGCATCCTTTTAATAAATGAAAATGTATTATGAATCGCTAAGCATGTCTTGGGATAAAGGCATTGGGCTTATTATGGCCAGTAGCGCACACACATACACACACACACACACACACACACACACACACACACACACACACACGCACGCTCTTACTCGTTTGTGCATCTACTTGTGAGCTCCCCCTGGAGGATGGAGTAATAGCTAGGGAGTAGGGGAGGCCAGGCTGGGGAGAGACAGCTGGCCTAACCCAAGCCATTTCTACTTCTTCTTATTCCCTTTGCAG
Seq C2 exon
CGTGTCTCGCCTGTTCTCAGACGCTCAGAGGCTTCTTCTGTACAGCCAAAGAGATACCAGCATTAAGGACATGCACAAGGTCCTGAGAATGTTACGGCAGATCAAGCATCCCAACTCAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000015243-Abca1:NM_013454:4
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:
NO
A:
NA
C2:
NO
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:
TTCCGAATAAAGCCATGCCGT
R:
TGAGTTGGGATGCTTGATCTGC
Band lengths:
254-1259
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: