MmuINT0007587 @ mm9
Intron Retention
Gene
ENSMUSG00000050296 | Abca12
Description
ATP-binding cassette, sub-family A (ABC1), member 12 [Source:MGI Symbol;Acc:MGI:2676312]
Coordinates
chr1:71318938-71321074:-
Coord C1 exon
chr1:71320987-71321074
Coord A exon
chr1:71319044-71320986
Coord C2 exon
chr1:71318938-71319043
Length
1943 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAAT
5' ss Score
8.88
3' ss Seq
CTCCTTTTGAAATTTGGCAGGTG
3' ss Score
6.64
Exon sequences
Seq C1 exon
ATATGGAGGTTGGAGTTTTGGGATGAAATTGACTAACGACCTTCGTTTTGATGTGACAGCTGTCCCTGACAATAGAACTCTTGCTAAG
Seq A exon
GTAAATTTGGGACTTTCTTCTGGGAGGTCATGTAAATAGCGATATGGAATTTGTACATATAAACACTTTCATGTGAGAAACATAAAACATTCAAAATCAATTCTGTGTGGTGCATACATGTGCTCTAAGGGGGCACATATACACAAGAGCAAGAACACACGTAAAAACTGTGCACAATGGTGCTTCTTGCAGTAATCAAAAATGTAGCTCTAAACACTCATCTGCAATAGAACTTCAGTTCATATTCACTCACTCACTCACTCACTCACTCACTCACTTACTCATTCATTCATTCACTCAATCACTCATTCACTCACTCATTCATTCACTCATTCATTCGGTTGTTCACTCACTCATTCATTCATTCATTCATTCATTTATTCATAGAACTTTCAGCAGTGGAATTAATCTCTGATGCATCACTGTTAAGTATTCATTCATTCATTCACTTTCTCATTCATTCATTCATTCATTCACTCACTCATTCATTTATTTACTCATAGAACTTTCAGCAGTGGAAATAATCTCCTCCTGTGCATCACTGATAAGCAAAGAGAGATATAGACAGTAGCACTGGACCCTGTTCACCTTTGTGTAAGCATAAAGAGTACGGGACTCTCAATCACACAGTCAAGGACAGGGGTGGCTCAGTGCACTGGGTCAGTATGGAGCGCAGCATCTGGGTGATTGTTCTCATGTGTGCTGGACTAATGTGTGTTATCCCTATGATTTTTTTTTTTTTGTCTCACAATGCTTTTATTTTTCCAGCACTTTCTTCATGTCTGTATCACAACTTCTTAGAGAATGGCAATGTGGGGCTCTTAGCCTCACTTCTCACCAAACCTGGAATAGTAACAAATCTAATAGAGATAAATAAGCCCACTGTTTTTTTTTTCTTCTTCTTCCAGATAGCAGCAATGCTTTGAGCCAAGCCAGTCACTGAGTCAGACACATATGACTGCCCAGATGATAAACAGCAATTATAAGGATTTTAGTTGTTTACTTATTTTCAGTCACAGAAAAATTTAATATCCTCTGAACATTTCTCTTTGGGTATTGAGAGACACAGAATCAGGGTGAAAGCGGAGCAATTAATATTCATTTAGTTCACGATTGTTCTATGCCAAGAAGCAGTTCACCTTTTAGAAAACGAAAATTAATTCCATTCTCCAGCAATCCTACTCCATAGACACTGTGGGACCCAGATCGTCACAAAGCTGTGTGGGAAATAACAATCCTGGGGACTTCGGTGTCCCCTTTGCTCCCCCACACACTGAGTTAATTTCTTTTCAAAATCAAGGGACTTTCTAATGTGAAATTACCCCTCTCTAAATCAGAATGCAAATTTTAAATTAACACCATTTAAAAAGCACACTAGTATTTTAAACACCTTGGTTTTGATGTAGAAGGTAAAGTAACTCAGATCCTGAGGGCTACATATAACTAGGAACAGAAAGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTTGGGGCGTAAAACTATCAGTTTTGTTGTTAAGGACACAAGGCTTGCATATTGTTAAAATTCCTTCCTCTACTCTGTTGCCACCCGTTTTTACCACTGCTGTTTTATCCCTGCTTCACTCTCCTCTAGAATTCTCGTGGGTCCACTGCGGAGATGCCGATGGCTTCTCCAGTTCATTTCAGGTTTTGCCTGTAGAAGCATCTAGAGCAGCTGCTAAGTCAGCTGTTACTCTCCCCACCTGTAAACCGAAAACCCACAGCTCCATCTACAATCAGCACTCCAGGGGCACTCCAGGGGTACCTTAACTATCTTCCGAGGTGGAAGGAGTCACTAGTAAATTGAGACTTTCCTTTAAAAATAAAGTATCCTACCGGATATTTTAATGTCTTACTCAAATACAATCCTGATCTTGTCTCCTTTTGAAATTTGGCAG
Seq C2 exon
GTGTGGTACGATCCGGAAGGCTACCATTCCCTCCCAGCTTACCTCAACAGCCTCAACAACTTCCTCCTGAGGGTTAACATGTCAGAGTACGATGCTGCCCGACACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000050296-Abca12:NM_175210:38
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:
PF126982=ABC2_membrane_3=FE(6.3=100)
A:
NA
C2:
PF126982=ABC2_membrane_3=FE(7.6=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:
TGGAGGTTGGAGTTTTGGGATG
R:
GTGTCGGGCAGCATCGTAC
Band lengths:
190-2133
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: