MmuINT0007790 @ mm9
Intron Retention
Gene
ENSMUSG00000026944 | Abca2
Description
ATP-binding cassette, sub-family A (ABC1), member 2 [Source:MGI Symbol;Acc:MGI:99606]
Coordinates
chr2:25292350-25292938:+
Coord C1 exon
chr2:25292350-25292446
Coord A exon
chr2:25292447-25292764
Coord C2 exon
chr2:25292765-25292938
Length
318 bp
Sequences
Splice sites
5' ss Seq
CCAGTGAGT
5' ss Score
8.28
3' ss Seq
TCATCAGCCTCCTGTTCCAGGCG
3' ss Score
7.22
Exon sequences
Seq C1 exon
GTGAGTGTGGACATCTTCAAGGGATTTCCTGATGAGGAGAGCATCGTGAACTACACTCTCAATCAGGCCTACCAGGACAATGTCACAGTGTTTGCCA
Seq A exon
GTGAGTTCCTCTCCCTCCTCCCACAAGGTCTTCTGTCTCCTACAGACCTACGCTCTCACCAGCTCAATCCCACCCTATCCCTACTGTGTCCCATTCTCTTCCAGTTCCTTGGCCTAGACCTTGTCCCCAGTTCCACGTCTTCTCACATCTCTACCTTCTCCCAAGCCTGCTTCAGTTTGCTCCCACAGGCGGCATGCTAGCTCCACCTCATGCCCTGTCCTTCAGTCCTATTTCCACTCCTGGAGTGCTCACCTCACTGTGTCCCACGCCTTCTGTGTACACCCTCTGGCCGTACACTTCATCAGCCTCCTGTTCCAG
Seq C2 exon
GCGTGATCTTCCAGACACGGAAGGACGGCTCCCTCCCTCCACATGTACATTACAAGATTCGCCAGAATTCAAGCTTCACTGAGAAAACCAATGAGATCCGCCGTGCTTATTGGCGTCCAGGGCCCAACACCGGTGGTCGCTTCTACTTCCTCTATGGCTTCGTCTGGATCCAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026944-Abca2:NM_007379:12
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=0.017
Domain overlap (PFAM):
C1:
PF126982=ABC2_membrane_3=FE(8.8=100)
A:
NA
C2:
PF126982=ABC2_membrane_3=FE(15.9=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:
TGAGTGTGGACATCTTCAAGGG
R:
CCTGGATCCAGACGAAGCCAT
Band lengths:
270-588
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: