MmuINT0008108 @ mm10
Intron Retention
Gene
ENSMUSG00000020620 | Abca8b
Description
ATP-binding cassette, sub-family A (ABC1), member 8b [Source:MGI Symbol;Acc:MGI:1351668]
Coordinates
chr11:109974508-109975131:-
Coord C1 exon
chr11:109974990-109975131
Coord A exon
chr11:109974694-109974989
Coord C2 exon
chr11:109974508-109974693
Length
296 bp
Sequences
Splice sites
5' ss Seq
ATGGTGAGT
5' ss Score
10.13
3' ss Seq
TGGGTCTGCTCTCATTCTAGATC
3' ss Score
9.66
Exon sequences
Seq C1 exon
GCTATCTTGGGGTCTGCTCTATGCTGGCTTTGTCTTCATTATGGCTCTATCCCTGGCACTTGTTATCAAATCTGTCCAGTTTTTTATTCTAACCAGCTTCATGGTGGTCTTTAGCCTCTTCCTCCTTTATGGATTATCTATG
Seq A exon
GTGAGTTGATTTAAAATTCCCCTTGCCCATCCCTTACCCTAAGAATTAAGCATCTTCTCAAAGAGGTCATTATTTCACGTATAGTAGGTTTTCTATCTTCTGTTTGCACACAAAACTCCATAGACAAGTGTACTTTTTTGTACTGTGTAGCACAGTTGCAAGACATGTTTTGTATATTTGTATGTTAGATCCCTTCTATCATTACCATTATTATTATTATTATTATTATTATTATTATTATTATTACCATATTATGTGAGATAAATGAAAGCCACCTGGGTCTGCTCTCATTCTAG
Seq C2 exon
ATCACTTTGGCTTTCCTAATGAGTGCCTTGGTGAGGAAGTCTGTCCTCACTGGCCTGTCTGTGTTTCTTCTCACCATCTTCTGGGGAAGTCTAGGCTTCACATCCCTGTACAGATACCTCCCTGCACCTGTGGAATGGACTCTCAGTCTCTTTAGCCCCTTTGCCTTCACACTAGGAATGGCCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000020620:ENSMUST00000020948:7
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(12.1=100)
A:
NA
C2:
PF126982=ABC2_membrane_3=FE(15.6=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGTCTGCTCTATGCTGGCTTT
R:
CTAGTGTGAAGGCAAAGGGGC
Band lengths:
307-603
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