MmuINT0007575 @ mm9
Intron Retention
Gene
ENSMUSG00000050296 | Abca12
Description
ATP-binding cassette, sub-family A (ABC1), member 12 [Source:MGI Symbol;Acc:MGI:2676312]
Coordinates
chr1:71337906-71339143:-
Coord C1 exon
chr1:71338988-71339143
Coord A exon
chr1:71338093-71338987
Coord C2 exon
chr1:71337906-71338092
Length
895 bp
Sequences
Splice sites
5' ss Seq
CAAGTAGGT
5' ss Score
7.33
3' ss Seq
TCTTCTCTTGGTCACTCTAGGTC
3' ss Score
9.31
Exon sequences
Seq C1 exon
GGACATATGGAATGGCAGCTCCATGGTATTTTCCCATCCTTCCTTCCTATTGGAAAGAGCGCTTTGGATGCGCAGAGGTGAAGCATGAGAAAAGCAATGGCTTAATGTTTACTAATATCATGATGCAGAACACCAACCCTTCTGCCAGTAAGACAA
Seq A exon
GTAGGTCAATAGCATGTACTATTATAACAGAAATTATACTAAAATTACATAACTAGTGGGTTTAGGTACATTTTTCTAAATGAAATTATTATCGTCCCTTTAGTCATGGGTGAGTATGTCTACACATATGTGTTTACATCCTTACAGGGACTGAATTGTGCCTTCTTCTGGGCTCATTAGCTCAGTTGGTTAGCATATGCTGCCAATTAAGCCAAAACTGTACATCCCTTTGTGGTCCAGTTAGACTCACGCAGAGAAAAATGTTGTTCCTTGCCCACAGTCCGCATCCCTTACTCTGGCCATCTGCTGCCAGTCATGGGAGTAACCAAGAAACAAAAATGGGTAATGTAGCATAACTCACAGCTGGTGTGAGAAAAAGAGTGCCTTGCTGGTGACCTGGGGTGATGCTATTGTCTCTATAAAGACCCCCTGTGCAAGTGGTGTTGTGGTGATGCCTGAAAGGAAAATTATCTGCATTCTGTAAGCCATAGACCCGAGAAAACTGTGCTACTGTAAAACCACAACTTGGAAACATTTATTTCATAAATTGATAATATCCTTCCCAATCAGAGAACAAACCTTCTGGGTTATCTTTTGAATATTTAAGATCTGCTGGGGAGGGGAAAAAAGAGACTTTAAAATTATGATACTGCATTCGGGAACTGCTCGTTCCAACAGAGAAGGCTGATACAATAAACCCTAGAGAATGTGGTTTTGTAGTCCTGCTCATTGTGTAAGCAGGTCAGAAGGAAGCTAGAGAATGTAATAAATCAGTTGCTTCTGAACTCTTTAAACTTAAAGATCACATTTATATAATCTCCAGTTTTTTAAGGAAAGTCTAACACAGCTCTATTAATTCCTTAAGAGCTTACAACTCTTCTCTTGGTCACTCTAG
Seq C2 exon
GTCCTGACTGTGCATTTCCCTCCAACATTGAACCTGAACCTAAAGATCTCCAAGTTGGAGTTGCCCTTCATGGGGTCACAAAGATCTATGGCTCAAAAACAGCTGTTGAGAACCTCAATCTGAACTTCTACGAAGGGCACATTACATCACTGTTGGGGCCAAACGGAGCTGGCAAAACCACAACAAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000050296-Abca12:NM_175210:27
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=0.079
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0000522=ABC_tran=PU(18.4=42.9)
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:
GGACATATGGAATGGCAGCTCC
R:
TGGTTTTGCCAGCTCCGTTT
Band lengths:
336-1231
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: