MmuINT0084213 @ mm10
Intron Retention
Gene
ENSMUSG00000001281 | Itgb7
Description
integrin beta 7 [Source:MGI Symbol;Acc:MGI:96616]
Coordinates
chr15:102216892-102217466:-
Coord C1 exon
chr15:102217247-102217466
Coord A exon
chr15:102217098-102217246
Coord C2 exon
chr15:102216892-102217097
Length
149 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGG
5' ss Score
10.07
3' ss Seq
GACTGGCATTCACCGGACAGGGA
3' ss Score
4.13
Exon sequences
Seq C1 exon
GCTTTGGCCACTGCCAGTGTGGAGTATGTCACTGTCACGCCAACCACACCGGCAGAGCTTGCGAGTGCAGCAAGAGTGTAGACAGCTGTGTCAGTCCTGAAGGAGGGCTCTGCAGTGGGCACGGATACTGCAAATGCAACCGTTGCCAGTGCCTGGATGGCTACTACGGGGCTCTGTGTGACCAGTGCCTAGGCTGCAAGTCACCATGTGAGCAGTACAG
Seq A exon
GTGAGGCCTCTCGCCCTTTACCTCGGGATCTGGGGCAGGGAGGCTTGCTGGGAATTCCTACCTGCCTGTTCTCCTTGAGGGTGTGTGGTGAGGGCTGGTGGGTAACAGCTGCCCAGATGTGAATCCACTGACTGGCATTCACCGGACAG
Seq C2 exon
GGATTGTGCAGAGTGCGGGGCATTTGGTACCGGTCCCCTGGCAGCCAACTGTAGTGTGGTCTGTGCTGACGTGAATGTGACCTTGACCTTGGCCCCTAACTTGGATGATGGCTGGTGCAAAGAAAGGACAATAGACAACCAGCTGTTCTTCTTCCTGGTGGAGCATGCAGCCAGCGGGATCGTACTGAGAGTGAGACCCCAAGAGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000001281:ENSMUST00000001327:12
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:
PF079748=EGF_2=PD(64.5=27.0),PF079748=EGF_2=WD(100=41.9)
A:
NA
C2:
NO
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:
TGTGTCAGTCCTGAAGGAGGG
R:
TCTTTGCACCAGCCATCATCC
Band lengths:
257-406
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