MmuINT0008083 @ mm10
Intron Retention
Gene
ENSMUSG00000020620 | Abca8b
Description
ATP-binding cassette, sub-family A (ABC1), member 8b [Source:MGI Symbol;Acc:MGI:1351668]
Coordinates
chr11:109955035-109957258:-
Coord C1 exon
chr11:109957063-109957258
Coord A exon
chr11:109955202-109957062
Coord C2 exon
chr11:109955035-109955201
Length
1861 bp
Sequences
Splice sites
5' ss Seq
TGTGTGAGT
5' ss Score
5.84
3' ss Seq
ACAGCTTTTATTCTCTGCAGGCT
3' ss Score
8.58
Exon sequences
Seq C1 exon
AGGTTGACATCGTGGGAGAAGGACAAACAGAGAGATCTGGGGACACAGAAAGGCTTATGGAGATGGAGCAAACTCTCTCTTCACTTAGGGAAACAGAGAAGACAGACGGCATGGCACTCTGGAGGCAGCAAACCTGTGCGATCGCAAAGGTTCGCCTGTTGAAGTTAAAGCACGAAAGGAAAACACTTTTATCTGT
Seq A exon
GTGAGTATCAGGATGCTTTTGAGCTCTCTTACGTAACATTAAAGATAACAAAGGTGGGACAAGAAGAGAAAACACTCTACTAAGCTAAGTAAGCGCCATTGCAGGGTTGGTTGTTGGTCCTGGCGATTATCTATTAGGAGACTAGATGGCAGAGTTTATAATGTTTGTAAGACAATCCTAAAGGAAGAGCTGAGGTGATGTAGAGTTTCCTTGCATATCTCCCCCCTTTCAAATTTGTCACCATGGGATATTGTGGACTTGTTGCAGGGGATCCTCTCTCCCAGGGCCCATGCATCAGTGCCTCAGACCTGCTGCTGTGTGCTTATCCTATTAGCACTTGCCTAGGTATCAGGGCATCCGTTAGCTTCTTTAGTGACAGCAACTTGATATCCATTCCTACTCTGTACACAGCAGATAGCATCCCTGGATTGGAGACTCATCATCTTCCATGACTATTATGATGTCTATGATACCTGACCCATCCATAAATGCCTTTTCTTTGACAATTATATTTTTATTAGATTTTCTGATTCATTGAATATGTATGTGTGTGAGTGTGTGCGCACATACAATGTGTGGGTGCGCATACCTGGGCGTGCATGTAGAGACCAGAAGAGAATATCAGATGTGCACCTCTATGACTCTCTGTCTGTTCCTTTAAGGCAGGGTCTCTTTAGACCTGAGGCTCACATTTTGTTATCTAAGCTAGAAGCCAACGAATCCCAGTTATACTGCTGTACCCATTCCTTTAAGCTGGGGTTACAGATGTATGCAGAACACTTGGCTTGGTGTATGGATGCTGAGATACAAATCCCAGTCCTGGGGTTGCACAGCAAGGACTCTTAATCACTGAGGTGTCCCTCCAGCACCACGATCACTGTGTTTTAAATTAAGAAGTGGAGTTACACATCCTAGCACATAATCCAACCCCAATAAACAGTATACAAAAATTTGACAAAGAAACAAAATGATTTAAGAAGAAAATTTGCATTATATTATCAGTATAGTAAGTAACATATAGAGAGTAAAGAATGAAAGGATGCCAGTCATTTCAAAAGATTTAGGCAAGAGATATTTATAAATTAGGTATGGATGAAGGTTTCAAATTAGCAAATATGATAACCGTGTTTTAGGATATATTAATTTCCTTGAAACAGGGAGTAAAGGAAAATAAATAAAAATTATTATTAGTTAGTAATTGATACATTTTAATTGATTCTTTTATTAAATAACATAATAATTTAGAATAAACCGTAAGTTAATTAAAGTATAAGTCTGGAGAATAAAGAGATCATGTGGACATTATAGAGTCAGAGACTATGGGAAGTAAAGTAGATGTGAAGAAAACTATTGGAGGGGGGTGATGATGAATTAACCAACAGAGAGGTGGAGAATCACACAGGACTCACAAGAGATAGGCAGAGACTGGGTGTCCAGACCATGGGGCTGTACACCCACAAGATATGTGGTATTGGACACTCAAGTGTAGAAGAGCAAGAGGAGTGATCAAAGAGTAAAGCTACAGTTTGTCCCCTCAAATTTAGAAGTGAGAGAGGGACAAAACACTCTTAAAAGATAGGCAGGGCTGGAGAGATGGCTCAGAGATTAAGAGCACTGTCTGCTCTTCCAGAGGCCCAGAGTTCAATTCCCAGAAACCACATGGTGGCTCATGACTATCTAGGATGGGATCTGATGCCCTCTTCTGGCAGGCTGGTGTACATGCAGATAGAGTACGCATATACAATCAATCAATCAATCAATAATCTTTTTTAAAAAATATAGGCCAGAGTTACCCATTTAATATTTGTGATTAGTGGATCAATCATAATATGCTCATGGTGACAGCTTTTATTCTCTGCAG
Seq C2 exon
GCTCTTGATACTGGTAGTCGGCATCTGTCCTTTTCTTTTTGAAAATATCTCAACGAAAATACGTCAAAGCTCTTACACTTGGGAACTTTCCCCACACGATTACTTCCTTGCTCCGGGACAACAGCCCCAGGGCATGCTCACTCAGTTATTGATCATTAATAAGACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000020620:ENSMUST00000020948:19
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.394 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
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:
GGTTGACATCGTGGGAGAAGG
R:
TAACTGAGTGAGCATGCCCTG
Band lengths:
343-2204
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