MmuINT0008095 @ mm10
Intron Retention
Gene
ENSMUSG00000020620 | Abca8b
Description
ATP-binding cassette, sub-family A (ABC1), member 8b [Source:MGI Symbol;Acc:MGI:1351668]
Coordinates
chr11:109979862-109981054:-
Coord C1 exon
chr11:109980850-109981054
Coord A exon
chr11:109980024-109980849
Coord C2 exon
chr11:109979862-109980023
Length
826 bp
Sequences
Splice sites
5' ss Seq
CAGGTATGT
5' ss Score
9.8
3' ss Seq
CCCTGCTCTCTCATCTGCAGATA
3' ss Score
12.57
Exon sequences
Seq C1 exon
GAGTGGGTGAGCTCCTTGCTCCTTCTGCTTTTCTTGTATTGGTATCCCCATGGTCATGGAGCTACTGACCTGTCTTCAGTGCCCACCAAGGATCTGGGACGAGTCGATTCTTTCAGACAATCTGGGTTCATGATAGGGTACACGCCTGTCACCAGCATGACACAACAGATAATGGAGAAGGTAGCTGCAACCCCTTTCATGGCAG
Seq A exon
GTATGTTTTCTAGTAACCTAGGAGTTAGGATTTGACTCTCGCCCGTTTTATTCTTTTAAGTCCTAACAAGATATATAGCATTGAACATGGTATCTACAGAAAAGACTATTTTAGTGCTATCAACATAGGCACTGGGTGTATTTTGAACTTTTCCATTATTCTTTGATTTTTGGGTTGTTTACTTGTTTGTTTTAGCTTATTAAACATATTATCAGCCTGGTTAGGGAAATGATTAAGCAGTTTAGCGCACTTGTTGCTCTTTCAGAGAACTTGAATTGGGTTCTCAGCACCGTTGTAGCCACTCACAACTGTCTGTTACTCCAGTTCAAGGACATCTGATACCCATTTCTGACCTCTGCAGGTATCATGCATTTATACGGTACACATACATACATGCAGGCAAAACACTCATATGTGTAAGATATATTATTAGGATTCATAAAAGAATACAATACTGTAGTGCTGCTTCTACTTAGTATAAACTAGTGTCTGATTTATACCATGTTATATTTGTTAAAATGATGACTGTAGAAATAATTTAGCTGGCACCACCCTATACTTTATTTTGTTGAAGTTAGCACAATAATCAAATATATAAAAATTAATTTTTATTAATTATTCCTTTTGACTGTGCCTCAATATAACCTCAGAAATATCGTCCTCTGACTTGTAGACTGAATGATGTATTCAACGTCAGTAATTGATTCCATATTGTTTCCATGAAGAACTTTTGTAAAAAAAAAAAAAAAATGACAGACTTGACATTTCAACATTGCCTCTCTCCATTATTCACTAACAACAATGTGCCCTGCTCTCTCATCTGCAG
Seq C2 exon
ATAAAAAAGTCTTGGGACTGTTGGATGAAGAAAATATCAAGGAATTAACAGAAAGTCATGCAGAAATAATAAGAGTCATTTTTTCTGACACATTCTCATACCATCTGAAATTCCAGTTTGATCAGAGAATCCCAACGTCGAGGGAACTCAGAGACCATAATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000020620:ENSMUST00000020948:3
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(17.4=100)
A:
NA
C2:
PF126982=ABC2_membrane_3=FE(13.8=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:
GCTCCTTGCTCCTTCTGCTTT
R:
GTTCCCTCGACGTTGGGATTC
Band lengths:
342-1168
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