MmuINT0084215 @ mm10
Intron Retention
Gene
ENSMUSG00000001281 | Itgb7
Description
integrin beta 7 [Source:MGI Symbol;Acc:MGI:96616]
Coordinates
chr15:102215995-102216632:-
Coord C1 exon
chr15:102216472-102216632
Coord A exon
chr15:102216268-102216471
Coord C2 exon
chr15:102215995-102216267
Length
204 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGG
5' ss Score
10.07
3' ss Seq
TGTGCAATGTTTTCCCACAGGAC
3' ss Score
11.13
Exon sequences
Seq C1 exon
AGGGAGTGGATCACACCCGTGCCATCATACTGGGCTGCACAGGGGGCATCGTGGCAGTGGGACTAGGGCTGGTTCTGGCTTACCGGCTCTCTGTGGAAATCTACGACCGACGGGAGTACAGGCGCTTTGAGAAGGAGCAGCAGCAACTCAACTGGAAGCAG
Seq A exon
GTGAGGCCAGCGACTGCTGCCACAGGCTGGGCTTTCCTGGTGACGTCTCTTAACTTTCTGTATCCCTAACACATAACCAGCTCTAAAGCTTCCCCGTGCAAGTCCCTCCCTCGGCATAACCAGGCCTCGGAGATCTGGCCTCGTGGGGCAGGTAGTGGGGAGAGCCTGATAGTTTTCCTTACTGTGTGCAATGTTTTCCCACAG
Seq C2 exon
GACAACAATCCTCTCTACAAAAGTGCGATCACAACCACTGTCAACCCCCGCTTCCAAGGGACAAACGGTCGGTCGCCATCCCTCTCTCTGACCAGGGAAGCAGACTGACTTAGGATTCTTGTCTTGGAGGACAGTGGAGATAGAAGGGCAGGGCAGCGTCTGTCAGGCAAAGATGCTGCCACCGCTGAGATTTTTCAGAGTGACCTTCAGAGGGCAGCAGCCATTCCCACCACACGAAGGGCTGGTCCTTCCATAATAAAGCTTTGCCCCAGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000001281:ENSMUST00000001327:14
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.019 A=NA C2=0.543
Domain overlap (PFAM):
C1:
PF087256=Integrin_b_cyt=PU(53.2=46.3)
A:
NA
C2:
PF087256=Integrin_b_cyt=PD(42.6=55.6)
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:
ACCGGCTCTCTGTGGAAATCT
R:
GCCCTCTGAAGGTCACTCTGA
Band lengths:
295-499
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