MmuINT0084150 @ mm10
Intron Retention
Gene
ENSMUSG00000020758 | Itgb4
Description
integrin beta 4 [Source:MGI Symbol;Acc:MGI:96613]
Coordinates
chr11:115988657-115989019:+
Coord C1 exon
chr11:115988657-115988755
Coord A exon
chr11:115988756-115988889
Coord C2 exon
chr11:115988890-115989019
Length
134 bp
Sequences
Splice sites
5' ss Seq
GCGGTGAGG
5' ss Score
7.93
3' ss Seq
GTCTGTTCTCCTCTCCCCAGATA
3' ss Score
11.92
Exon sequences
Seq C1 exon
GGCATCTGCAACGGCCGAGGCTACTGTGAGTGTGGCCGTTGTCACTGCAACCAGCAGTCGCTCTACACGGACACCACCTGTGAGATCAACTACTCTGCG
Seq A exon
GTGAGGCAAGGGCTCCTGGGGTGTGGGCATGGGAACCCCAGGAACTGCGGTGGCTGGGAAGGAGACGCTGGCTGAGCGCACTAGGGAAAGGGAGTTGGGTCCACCCAGCATAGTGTCTGTTCTCCTCTCCCCAG
Seq C2 exon
ATACGCCTGGGTCTCTGTGAGGATCTCCGCTCCTGCGTACAGTGCCAGGCCTGGGGCACCGGGGAGAAGAAAGGGCGCGCGTGTGACGATTGCCCCTTTAAAGTCAAGATGGTAGACGAGCTTAAGAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000020758:ENSMUST00000021107:16
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:
NO
A:
NA
C2:
PF079657=Integrin_B_tail=PU(44.2=86.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CATCTGCAACGGCCGAGG
R:
CTTTCTTAAGCTCGTCTACCATCT
Band lengths:
227-361
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