MmuINT1003461 @ mm10
Intron Retention
Gene
ENSMUSG00000050296 | Abca12
Description
ATP-binding cassette, sub-family A (ABC1), member 12 [Source:MGI Symbol;Acc:MGI:2676312]
Coordinates
chr1:71286459-71288756:-
Coord C1 exon
chr1:71288538-71288756
Coord A exon
chr1:71286656-71288537
Coord C2 exon
chr1:71286459-71286655
Length
1882 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGT
5' ss Score
10.47
3' ss Seq
TCACTATTTTTTTCTTGAAGGAC
3' ss Score
8.76
Exon sequences
Seq C1 exon
CTCCATGCTGACTGGGCTGTTTGGTGCCACAGCGGGTACCATTTTTGTATACGGAAAAGATATCAAGACAGACCTGAATACTGTTCGGAAAAACATGGGGGTCTGCATGCAACATGACGTCTTGTTCAGTTACCTAACCACCAAGGAACACCTTCTCCTGTATGGCTCCATCAAAGTTCCTCACTGGACCAAAACACAGCTCCATGAGGAGGTTAAAAG
Seq A exon
GTGAGTTAGTCCAGAAATAAGAACACAACTGGCTAAGCTCTTCCAAGGACATATACCATGTTGGGCAAGTTCTGGTAGCAATAATGATGGGAAGCATTTTGCTTTGCTTCCTACCTCTCTGATAACATACACATTTAGCATTATTATCCTCTCCAGACAGTCATACACGCACTGTTCAACTCTGCCCTGGTGCCTTGTATGTTGACCCAGATCTTTTGTTTTCACTTCTGCCTGGGCACGACATCTCATAGCCTCTTAAATGGACTTCCTGCTACTGCTCTCCCCAGTCATGGATTCTTATCAGCGAGTTGTCAGAGTGAGCTTTGTCAATGGCAAATCAGACCATGTCATTCCTGCCACCACTTGAGTGGCTTTTGCCACACTTAGTATGACATCCCATAATGTCATTAGCAAGGCCTACCAGACCACACAAAACATGCCCTCCATCCCACATCTGACTACATTGTTTCCCATTCTCTATTTACTCTGGTCTGGGAATATAAGCTACTCATACACTTGATTATTCACAACTGATTTCTGCCACAAGTCCTTTTGTTTGTTTTTCTTAACTTACCATATGTTTCCTGAGAGCCATTTGGACACTCCTGGCCAAATGAACACTTTCCAGTCATTGCTCATCTGACTTTTTAGTTTATTAATTGTGTGCTGATTACCACTTGTTATATTATAAATATTCTTGAGATTATGCTTATCATAGGAATTTCTTCACCCTCTGCACACATGTGCAAACAATCTCTTTATGAAAAAGATATCTTTCTATTCGTTGCTCTTTTCTATGACATAATCTGATACAAAAGTACAATGTTCTAACTATCTGTCAAACAAGTGGACTATATACTCTCTTGTGGTTTTTCTTTTCTTTTTTTTTAATTAGGTATTTTCTTTATTTACATTTCAAATGTTATCCCCTTTCCTAGTTTCACCTCCGAAAATCCCCTAACCTCTCTTCCCTCCCCCTGCTCCCCAACCCACCCACTCCTGCTTCCTGGCATTCCCCTATACTGGGCCATAGAACCTTCACAGGACCAAGGGCCTCTCCTCCCATTGATGACCGACTAGGCCATCCTTTGCTACATATGTAGCTAGAGCCACGAGTCCCTCTATGTGTTTTCTTTGATGGGTGGTTCAGTCCCAGGGAGCTCTGGGGTTACTGGTTAGTTCATATTGCTGTTAGTAATTGTTAGTTCACTCAGGATGATGCCCTCCAGGTCCATCCATTTGCCTAGGAATTTCAAAAATTCATTCTTTTTAATAGCTGAGTAGTACTTCATTGTGTAGATGTACCACATTTTCTGTATCCATTCCTCTGTTGAGGGGCATCTGGGTTCTTTCCAGCTTCTGTCTATTATAAATAAGGCTGCTATGAACATAGTGGAGCATGTGTCCTTCTTACCGGTTGGGACATCTTCTGGATATATGCCCAGGAGAGGTATTGCTGGATCCTCCGGTAGTACTATGTTCAATTTTCTGAGGAACCGCCAGACTGATTTCCAGAGTGGTTGTACAAGCTTGCAATCCCACCAACAATGGAGGAGTGTTCCCCTTTCTCCACATCCTCGCCAGCATCTGCTGTCACCTGAATTTTTTATCTTAGCCATTCAGACTGGTGTGAGGTGGAATCTCAGGGTTGTTTTGATTTGCATTTCCCTGATGATTAAGGATGTTGAACATTTTTTCAGGTGCTTCTCTGCCATTCGGTAATTGTTAGTTCATATTGTTGTAGTAATTATTTTTGTGACAATAATTAGATGACAAATGACAATAAACCGTATCATGTTTTCGGGAACTGTATTGCACCTCACTGAAGACGTATCCACTGATTGTGAACACAATAGCACCATTCACTATTTTTTTCTTGAAG
Seq C2 exon
GACTTTAAAAGACACTGGACTGTATAGTCATCGCCATAAGAGAGTTGGAACGTTGTCGGGAGGAATGAAGAGGAAGTTGTCCATATCCATAGCTCTCATCGGTGGCTCCAGGGTAGTGATTTTGGATGAACCATCCACGGGCGTTGACCCATGTTCTCGCCGAAGCATATGGGATGTCATATCCAAGAACAAAACTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000050296:ENSMUST00000087268:29
Average complexity
IR
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:
PF0000522=ABC_tran=FE(49.7=100)
A:
NA
C2:
PF0000522=ABC_tran=PD(31.3=68.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCATGCTGACTGGGCTGTTTG
R:
CCAAAATCACTACCCTGGAGCC
Band lengths:
342-2224
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- 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