MmuINT0084214 @ mm10
Intron Retention
Gene
ENSMUSG00000001281 | Itgb7
Description
integrin beta 7 [Source:MGI Symbol;Acc:MGI:96616]
Coordinates
chr15:102216472-102217097:-
Coord C1 exon
chr15:102216892-102217097
Coord A exon
chr15:102216633-102216891
Coord C2 exon
chr15:102216472-102216632
Length
259 bp
Sequences
Splice sites
5' ss Seq
AGAGTAAGT
5' ss Score
9.35
3' ss Seq
TTAAACCTTGGCCCCACCAGAGG
3' ss Score
4.3
Exon sequences
Seq C1 exon
GGATTGTGCAGAGTGCGGGGCATTTGGTACCGGTCCCCTGGCAGCCAACTGTAGTGTGGTCTGTGCTGACGTGAATGTGACCTTGACCTTGGCCCCTAACTTGGATGATGGCTGGTGCAAAGAAAGGACAATAGACAACCAGCTGTTCTTCTTCCTGGTGGAGCATGCAGCCAGCGGGATCGTACTGAGAGTGAGACCCCAAGAGA
Seq A exon
GTAAGTGGGCAGAGACACCATGTATATGATAAGTGGAGCTTACCAGGCAGGACCTCAGAACTGGGGATGTGAAAAAGATAAGGGTAATGGGTTTGAAACAGTCACCAACCTAGGGCAAAGGCAGAGATGAGATGAAGGCCCTAGGAGGGAGGACAACCTTGGGCTCTGCTGGGTCCCGTTCTCAATGACAGGGCTGGCTGGGGAGGCTGGACATCCTTTGGGTAGCTGTGGGTCAGCCCTTAAACCTTGGCCCCACCAG
Seq C2 exon
AGGGAGTGGATCACACCCGTGCCATCATACTGGGCTGCACAGGGGGCATCGTGGCAGTGGGACTAGGGCTGGTTCTGGCTTACCGGCTCTCTGTGGAAATCTACGACCGACGGGAGTACAGGCGCTTTGAGAAGGAGCAGCAGCAACTCAACTGGAAGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000001281:ENSMUST00000001327:13
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=0.019
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF087256=Integrin_b_cyt=PU(53.2=46.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTAGTGTGGTCTGTGCTGACG
R:
TGCTGCTGCTCCTTCTCAAAG
Band lengths:
301-560
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