MmuINT0008110 @ mm10
Intron Retention
Gene
ENSMUSG00000020620 | Abca8b
Description
ATP-binding cassette, sub-family A (ABC1), member 8b [Source:MGI Symbol;Acc:MGI:1351668]
Coordinates
chr11:109971685-109973818:-
Coord C1 exon
chr11:109973671-109973818
Coord A exon
chr11:109971854-109973670
Coord C2 exon
chr11:109971685-109971853
Length
1817 bp
Sequences
Splice sites
5' ss Seq
CAAGTGAGT
5' ss Score
9.1
3' ss Seq
CTCATCTCTTGGGTCTCCAGATG
3' ss Score
8.47
Exon sequences
Seq C1 exon
CTCTTACGTGTGGATTATGATTTAAATTCTAATGCACCCCCTGATCCAGCCAGTGGCTCAAATCTGATTATAGCAACCAATTTCATGCTGGTATTTGATGCGTTTTTGTATCTGGCCCTGATGATGTACTTCGAAAAAGTTCTGCCAA
Seq A exon
GTGAGTACAGATGTGAGCAAAATAGACTACCATTGTAATAAATTGCATTCCCCAACCAGATTTCCTAAGGCATGTATTATTCATACTTCCGGCATCAACACGAATTAAGATTGGTCAACTCATTACCATTGGCCAAATCAGTTCTTCCGTTTTCTTTGCCCTTGGTTGTTCAGACTTGAAACCTATTTTGTATATTGAATCACTTGCCTGTGTTTCGCATCCTATGAGTTATGGCTTGTTTCTTGATTGATGTTCATTTGTTTATTAATTCATTGTGCTGGGGACCAAATCAGGGATTCACACATACTAAACAAATGCTGGACCACTGAGCCACAGGCTTTAGCCCTTGTCTTATTCCTTTGTAAGAATCACTTTAGAAAGCTCATTCCTAAATGGGTCTGCTGATGATGGATATTTATAGCTACTTTGGTGTGACTAGCTAGCTTAGCAATTCTGCATCCTAGCTGGACATCAGAATTATGAAGTGAAATGTGCAGAAGGAAGAAGGACAGCTGATGCCGGAGAGATGTAGATCCAATTTCTCAGTGAAGGGAGTTGGCTACCTGTAGTTTTAACAATCTTCCCAGAGTATCACAACACAAAAATAGTATTACCATCAGGGTGGAGTGGTTTGTGCTTGTAATCCCAGATTTTTCAGAACAGAGGGCAGCCTGAATCACAGAGTGAGCTCAAGGCCCCCTGAAACTTAGTAAGATCCTATCTCAAAAGAAAAAGCCAAAGGATGGCAGAGGCTTGGTAGAGCTCAGTGGAAGAGCCATGTACATGCTGGAGAAGTTATATGAAGTACACCTCATGCTCTCAGAAGGCTCCTGGGTTTTTTTTGTTTTTTGTTTTTTGGGTTTTTTCTTCAATATTTTTTCTAGACATTATTCACATGTTCAGTTTTTCTGCTTTAAAACCACCTTTATTAACATAACAAGAAATTGTTCTTTCATCCCAAGTCGTCTAATTCTTTGGCTTCTGCCTACCACTCTTTCACAAAGCATAAATATAAGACTAGAAATGACTTCATTCACATTTTTTAAAAGAAAGTAAAAATGAATCACAGAAGAATAAAGCTAATCCTGTGAAATGCTGAAATCCCACAACAGTCCGGGTAGGAAACAGGTGCGGGCTGAAAAAAATCAAACTTCCAGTTCCACAGAGAGCTCAGCACTTACTGTGTGAATGAAGCCCCGCCCATGTGACGAGTGTGCCTGAGCTCTAAAATTCCCCATTCTGGCAGGGAAGGTCAGTTGCAGCATATTAGAGAACCATGTCCTCTCCTTCAAAGAACATCCAAAACTACGGAAGGGAAGCAATGATAACACTCAAGTGGGCTAATATCCACCAAGATGCTTGTGATGAACGCATTCCCAAACGAGCCCCCAAAGCTCCTCCTTTACTACAAACGTGCCTTTGGTTCCCCTAAGTCTTATTACATCTTCTTTCCAAGTATCTCATCTAGCCAGCCACTGCTTCTTGAGGTCTTCTTCCTATGCATAATATGACATTCGGACTTAAAACAGAATCCAGATGCCTAGCAGATCTTACCCTTTTAATCCCCAAATTAAAACTACTTCAAGTATAACTATCAGATTTACGAAATTCCTCCTTTTAGAAATACTTGCAGTGAACTTCTACTTATTACAATGGAGAGATCCTGGTAGGATTTTTCCTGATAAAGCTACAAAGTTGCTTCATGTGGACCATGTAGGTGTTCAGGCTTGGCCGAAAAGGGTGGCAGAGATGGGGGTGTGGCAGGAGTGGGATAATTGATGACTGACTCAATGTTCACTCATCTCTTGGGTCTCCAG
Seq C2 exon
ATGAATACGGACATCAGCACTCTCCCCTGTTTTTCCTGAAATCTTCATTTTGGCTACAAACACGAAAGCCTGCTCATGTGATTCTTGAAGATGGAATAGACCCCGTTCCTTCATCAGGTGACTCGTTTGAACCGGTGTCCCCAGAATTCCACGGGAAAGAATCCATCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000020620:ENSMUST00000020948:9
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=0.091
Domain overlap (PFAM):
C1:
PF126982=ABC2_membrane_3=PD(10.8=84.0)
A:
NA
C2:
NO
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:
TATGATTTAAATTCTAATGCACCCCC
R:
CTGATGGATTCTTTCCCGTGGA
Band lengths:
302-2119
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