MmuINT0084173 @ mm10
Intron Retention
Gene
ENSMUSG00000020758 | Itgb4
Description
integrin beta 4 [Source:MGI Symbol;Acc:MGI:96613]
Coordinates
chr11:116007501-116007865:+
Coord C1 exon
chr11:116007501-116007665
Coord A exon
chr11:116007666-116007754
Coord C2 exon
chr11:116007755-116007865
Length
89 bp
Sequences
Splice sites
5' ss Seq
GAGGTGCGC
5' ss Score
7.52
3' ss Seq
GACGGATCTGCCTGTTCCAGGCC
3' ss Score
6.66
Exon sequences
Seq C1 exon
CACCAGCCAGGACCTTCCGGGTGGACGGAGACAACCCTGAGAGCCGGTTGACTGTACCTGGCCTCAGTGAGAACGTTCCTTACAAGTTCAAGGTTCAGGCCAGGACGACCGAGGGCTTCGGGCCAGAGCGTGAGGGTATCATCACCATCGAGTCTCAGGTTGGAG
Seq A exon
GTGCGCTGTCCCCAGTCCTTACCCCGGTCTCTCTGGAGCATAACACCTTTGCATAACACCATCCTGACTGACGGATCTGCCTGTTCCAG
Seq C2 exon
GCCCCTTCCCACAGCTGGGCAGCCATTCTGGGCTCTTCCAGAACCCAGTGCAAAGCGAGTTCAGCAGCGTGACCAGCACGCACAGCACCACGACTGAGCCCTTCCTCATGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000020758:ENSMUST00000021107:39
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.732 A=NA C2=0.737
Domain overlap (PFAM):
C1:
PF0004116=fn3=PD(49.4=76.8)
A:
NA
C2:
NO
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:
CTGTACCTGGCCTCAGTGAGA
R:
GCTTTGCACTGGGTTCTGGAA
Band lengths:
170-259
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