MmuINT0007791 @ mm10
Intron Retention
Gene
ENSMUSG00000026944 | Abca2
Description
ATP-binding cassette, sub-family A (ABC1), member 2 [Source:MGI Symbol;Acc:MGI:99606]
Coordinates
chr2:25437245-25437590:+
Coord C1 exon
chr2:25437245-25437418
Coord A exon
chr2:25437419-25437487
Coord C2 exon
chr2:25437488-25437590
Length
69 bp
Sequences
Splice sites
5' ss Seq
AGGGTGAGG
5' ss Score
7.13
3' ss Seq
ACACCACCTCCAACCCACAGACA
3' ss Score
7.69
Exon sequences
Seq C1 exon
GCGTGATCTTCCAGACACGGAAGGACGGCTCCCTCCCTCCACATGTACATTACAAGATTCGCCAGAATTCAAGCTTCACTGAGAAAACCAATGAGATCCGCCGTGCTTATTGGCGTCCAGGGCCCAACACCGGTGGTCGCTTCTACTTCCTCTATGGCTTCGTCTGGATCCAGG
Seq A exon
GTGAGGTTTTGAGCCCAGATGGGATTCGAGGGGGCCTGGCCTCGCCCTGACACCACCTCCAACCCACAG
Seq C2 exon
ACATGATGGAGCGCGCCATCATCAACACATTTGTGGGGCATGACGTGGTCGAACCTGGCAACTACGTGCAGATGTTCCCATACCCCTGCTACACCCGTGACGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026944:ENSMUST00000102919:13
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.017 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF126982=ABC2_membrane_3=FE(15.8=100)
A:
NA
C2:
PF126982=ABC2_membrane_3=FE(9.3=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGAGATCCGCCGTGCTTATTG
R:
GGTGTAGCAGGGGTATGGGAA
Band lengths:
178-247
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