MmuINT0084174 @ mm10
Intron Retention
Gene
ENSMUSG00000020758 | Itgb4
Description
integrin beta 4 [Source:MGI Symbol;Acc:MGI:96613]
Coordinates
chr11:116007755-116008412:+
Coord C1 exon
chr11:116007755-116007865
Coord A exon
chr11:116007866-116007960
Coord C2 exon
chr11:116007961-116008412
Length
95 bp
Sequences
Splice sites
5' ss Seq
TGGGTGAGT
5' ss Score
8.73
3' ss Seq
TCTCATCCCTTCCCTTGCAGATG
3' ss Score
13.17
Exon sequences
Seq C1 exon
GCCCCTTCCCACAGCTGGGCAGCCATTCTGGGCTCTTCCAGAACCCAGTGCAAAGCGAGTTCAGCAGCGTGACCAGCACGCACAGCACCACGACTGAGCCCTTCCTCATGG
Seq A exon
GTGAGTCACCAAGCCAGGGGACCCCGACTCCTGGGAACGGCCAGTGCAGAGGAGCTGGGACCTGTACTCCACCCTTCTCATCCCTTCCCTTGCAG
Seq C2 exon
ATGGTCTAACCCTGGGGACCCAGCGCCTGGAAGCAGGAGGCTCCCTCACCCGGCATGTGACCCAGGAATTCGTGACCCGGACCTTAACGGCCAGTGGCTCTCTCAGCACTCATATGGACCAACAGTTCTTCCAAACCTGAACCTCCCCCGCGCCCCAGCCACCTGGGCCCCTCCTTGCCTCCTCTCCTAGCGCCTTCTTCCTCTGCTGCTCTACCCACGAGCTTGCTGACCACAGAGCCAGCCCCTGTAGTCAGAGAGCAGGGGTAGGTGCTGTCCAGGAACCATAAAGTGGGTAGAGGTGATACAAGGTCTTTCTGACTGCATCCCACCCTGGGTCCAATCCCACATGTAACCAAAAAAAAAAAAAAAAAAACCAAAAAACAAAAAACTGGAGCTGGCACAAGTCCCCAGCCTTTTGTTCTGCACTTAATAAAAGGTTTTGCTACTGCTTA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000020758:ENSMUST00000021107:40
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.737 A=NA C2=0.413
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACGACTGAGCCCTTCCTCATG
R:
GGGGAGGTTCAGGTTTGGAAG
Band lengths:
170-265
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