MmuINT0008087 @ mm10
Intron Retention
Gene
ENSMUSG00000020620 | Abca8b
Description
ATP-binding cassette, sub-family A (ABC1), member 8b [Source:MGI Symbol;Acc:MGI:1351668]
Coordinates
chr11:109950629-109952690:-
Coord C1 exon
chr11:109952553-109952690
Coord A exon
chr11:109950737-109952552
Coord C2 exon
chr11:109950629-109950736
Length
1816 bp
Sequences
Splice sites
5' ss Seq
ATGGTAAGT
5' ss Score
11.01
3' ss Seq
ATTCAGCTTTTCCTTTTCAGGAT
3' ss Score
9.7
Exon sequences
Seq C1 exon
AACCACAGCTTTTCGTTTGCATGCAACACCAAGAGACTGAACTGCTTCCCAGTTCTGATGGACATCCTGAGCAACGGGCTACTTGGAATGGTTAAACCGTCAGCCCGCATCCAAACCGACAGAAGCACATATCTCATG
Seq A exon
GTAAGTTCAAGTCCTTTGCAGCATCCTCCCTGATCATCTTTTAAAGTCCTGGAATCATAGCTCTTTGGAATCCACCAAAACTGTAGCCAGAACTTGGATTCATGCTGGCTTCTGTGGCTTTGGAAAACCAGTACCTTTCAGGACCTCTGGGCTTTTAAAACTGCAAACTAAACCATTTTCCCGAAGAGGATAAGAGAGGACAAGAGTGAGAGTGTACAGTACTGTGATTAATACGAAGGAAAGAACACACAGAATGAAATAAGAAAGGGGGTTGGGAGGGAGGAGGAATGGGAGGAGGAGAGGGGAGCCTCGTTACTTTTACCAATGCTACTGAAGAAAGAAATCTGGACAAAGCTCAGGCTGGAATTTCAAACTATCCTCATTAGAATAACTCCAGGTTCTTGCCAGTAATATCAACTCCTTTGACCTACCTTAGACTTACTAAACCAACTTTTCCAAGTACAGAACAAAGAAAAAAATTCCATTTCTCTTCCTGGCAGCTATAGTAGCTTATAGTAGCTCTGGAGGTAGAGACAGGGAATTGCCCAGGAAGCTGCTAACTAGTCTAGTTGATTCTGCCTTCAAATGAGTGACTCTGTTTCAGTATGTGATATGGAGAAGGAATGAAACAAACACCCATGTCAGCCTCTCCCCATACCTACACACACGCAAGTGTGCACATACCCTACACATGGACCAAAAAAATTGTATTTCTAACCCAAGGCCTGAGCAATTGAACATAGACAGCCCTTCAAATTTAGAAACTGGGCAGCCATCCTTTGGAAAGATTCCTTTCTTCTCAAGTATATTTCTCCCTGTTACAAATGTAGAGAACACTGCATTTTTTAAAAATCTTTTTGATTTAAATTCTGAACAGTTTTGTATATAGTGTTTTCCACAAATGCATATCTGTGTACCACTTGTGTGCCCTCTAAGGTGAAAAGAGGGCATCAGATCCTCTGAAACTGGAGGTACAGATGATTGTGAGCCATCTTGTGGGTGCTGGGAACAGAACCTGGGTCCCCTGGAAGAATAAGCCAGTGCTCTTAACAGCTGAACCATCTCCCCAGTCCCACAGCTTTTAACACATTTAAACATTAAGTACCTGGTACCCAGGGACAAGCCCTGGACACAGAAAGCACTTACTAACTTACTTGCTAAATACATAAATGAACATCAGTGATCAACATTGACTTTGTCCTATTCAGCTCTCTGGCTCTGTGATGTAGTTAACCAAATGCTTAATCAAGCAATGGCTGTGTGAATCTTCAAGTGATGATGGCTTTGTGGGTGATGAGAGTTTGTGCATCTCCTTTCCTTGAAGGGAGTTGCAGAGGCAACAACCAACAACAACGTTTCGCGTGGCTCTTTCACATCTCCTCCTCATACTCCATCTCTACGTCAGGACCACCAACCAGTACTGACCTGGCCTCCTGACGTGCCTATTGTTTGATATGGTTCTTGAGCCCAGCTACCACATTGAGGAAATTGAAGATCAGTTGGGAAACTAAGGATGTCGGCTATGACATATCATGTATTACCTAACGTCACAGTAAATCATAGAGTGAATGACACAAAAATACATTGTTAATACTTTCCCACTATGCAATGTTTTTGGTCAATGCGTGCGTGCTCTTGGTATCAATTCCTTAACTGGCAAGTTTGAGCATGAAGTGAAGTAGTCCAAAGTTAAGCAAACTAGAAGGACTGTGAAAAGTTTGGAGGTTCCAACAAGACATACAATCAATTTAGCATTTTTAAAATTTATTCCAGGACAAGAAACTCCGAATTTGTTCATTCAGCTTTTCCTTTTCAG
Seq C2 exon
GATGAAACTATTCATCCTTTAGAAGACCTATGGAAGACTGCATTCTGGCTGATTCTGACCTCCGCTTGCCCTCCTTATATTGCCATGAGCAGTGTCACAGATTATAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000020620:ENSMUST00000020948:22
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:
PF126982=ABC2_membrane_3=FE(16.1=100)
A:
NA
C2:
PF126982=ABC2_membrane_3=FE(12.5=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AACCACAGCTTTTCGTTTGCA
R:
CTTATAATCTGTGACACTGCTCATGG
Band lengths:
246-2062
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