MmuINT0084173 @ mm9
Intron Retention
Gene
ENSMUSG00000020758 | Itgb4
Description
integrin beta 4 [Source:MGI Symbol;Acc:MGI:96613]
Coordinates
chr11:115868815-115869179:+
Coord C1 exon
chr11:115868815-115868979
Coord A exon
chr11:115868980-115869068
Coord C2 exon
chr11:115869069-115869179
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-Itgb4:NM_133663:37
Average complexity
IR-S
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
Chicken
(galGal4)
No conservation detected
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
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: