MmuINT0084211 @ mm10
Intron Retention
Gene
ENSMUSG00000001281 | Itgb7
Description
integrin beta 7 [Source:MGI Symbol;Acc:MGI:96616]
Coordinates
chr15:102217774-102218690:-
Coord C1 exon
chr15:102218497-102218690
Coord A exon
chr15:102217998-102218496
Coord C2 exon
chr15:102217774-102217997
Length
499 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGG
5' ss Score
10.07
3' ss Seq
TCTCTGCTTTCCCTTCCCAGCTG
3' ss Score
11.03
Exon sequences
Seq C1 exon
GTGGATTTCTGGGTCACTCTTCAAGCTACTCACTGCCTCCCAGAAGCCCACGTCCTACGACTCTGGGCTCTTGGCTTCTCAGAGGAGTTAACTGTGGAGCTGCACACAGTGTGCGACTGTAACTGTGGTGATGCCCAGCCTCACGCTCCCTACTGCAGTGATGGACAGGGGGACCTTCAGTGCGGGATATGCAG
Seq A exon
GTGAGGGTTTTATGAACTCTGCTTTCTATCCTCCTGGAGTCACCTAGGTATCTCAGGAATCTACTTGAATGTCATACCCCAAAGCTTCCCATATATGCTAAGGCCTTCGCCTTGACCTGAATCCCCCTCCCCACCCTGACCCTTGGTACACTTCTATCTGAGTTTGTTTCAGCTGCTCTGTCTCCTTCTCCCTTGAGAACATGACCTTAGTGCAATGGTTCTCAACCTTCCTAACACTGCAACCCTTCAATACAGTTCATGCTTTAGTGACCCCAAACCATAAAATTATTTTCATTGCTACTTTATAACAGTAATTTTGTTACTGTTATGAATTGTAAATATCTCTGTTTTCCCATGGTCTTAGGGGACCCCTGTGAAAGGGCCACTTGACTCCCAAAGGGTCACAACCCACAGGTCGAAAACTGCCGGCCTAGGATATCTTGAGAGACAGGTCAGAGGTAATCAAACTCTGACCCATCTCTCTGCTTTCCCTTCCCAG
Seq C2 exon
CTGTGCCCCTGGCCGTCTTGGTCAGCTGTGTGAATGCTCTGAGGCTGACCTGTCCTCCCCAGATTTGGAATCTGGTTGCCGGGCCCCAAACGGGACAGGGCCCCTATGCAGCGGGAAGGGTCGATGCCAATGTGGACGCTGCAGCTGCAGTGGGCAGAGCTCTGGGCGTCTGTGCGAGTGTGATGATGCCAGCTGTGAGCGACATGAGGGCATCCTCTGTGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000001281:ENSMUST00000001327:10
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:
PF0036213=Integrin_beta=PD(9.1=60.0)
A:
NA
C2:
PF079748=EGF_2=PU(32.3=13.2)
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:
GTCCTACGACTCTGGGCTCTT
R:
CTCACAGCTGGCATCATCACA
Band lengths:
342-841
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