MmuINT0084218 @ mm9
Intron Retention
Gene
ENSMUSG00000001281 | Itgb7
Description
integrin beta 7 [Source:MGI Symbol;Acc:MGI:96616]
Coordinates
chr15:102053762-102054903:-
Coord C1 exon
chr15:102054733-102054903
Coord A exon
chr15:102054004-102054732
Coord C2 exon
chr15:102053762-102054003
Length
729 bp
Sequences
Splice sites
5' ss Seq
TAGGTAAGC
5' ss Score
8.89
3' ss Seq
CCATCGCTTTCTGCTTTCAGGTT
3' ss Score
10.65
Exon sequences
Seq C1 exon
GGGAGCCCCAGAAATTCCGGGTCCGCTTCCTCCGAGCTGCGGGGTACCCCGTGGACCTATATTACCTTATGGACCTGAGCTACTCAATGAAGGACGACTTGGAACGTGTGCGCCAGCTAGGGCATGCCCTGCTGGTCAGGCTGCAGGAGGTCACACATTCTGTGCGCATAG
Seq A exon
GTAAGCAAGCGCTACCTAGACCCTGCCAGCCCTTGTCACTGCCTTTAGCTTCCACTATACTCTCCCAGTATTTAACAGACTCGATCATTGGATCTTGACATCTCTCCCAAGAGACACTCATCTAGGTCTAAGCTCTCGAGGAGCTTTTGGATTGACCCTTGAAGGTTCCCTTGCTCTACAGGAGGACCAACTGAGGCTCAGAATTTAAAAGACTATTCAGACAGACAGCTGCCCACCCAGTGTTTCTGGATAATCTAGATGCAGTGTTCCTGTTCCACATTCTGTAATGATCCCCCCCCCCCCCCGTCCCCTATGGCTCAAATTCACCCCGTGCCAGGTAGTGGCGGTGCACACCTTTAATCCCAGAAGGCAGAGGCAGGCAGAGCTCTGAGTTTGAGGACAGCCTGGTTTACAGAGCCAGTTCCAGGACATCCAGGGCTACACAGAGAGAACCTGAGTCAAAATAAACAAGCCCCCTTTAAAACACCGGCTTGGTGCCGCCTGCTGTTTCTACACCCTTGACCCTGGATGCCTCAGCCTCCAGGAAGCCTGGATGCTGCTGTTGGGTCCTCCTCTTCATCTCCTCCATCCCCACCTTCTTGAGTCACATTTTTGCCCTTGCCAGGTCCCTGTCATCTAGGTGTATCATCTGAGTATTTAGCAGGGACTCTTAAATCCTGTCGATGCCTTGTGATCTTTGGCACAGCTCCCATCGCTTTCTGCTTTCAG
Seq C2 exon
GTTTTGGCTCCTTCGTGGACAAAACGGTGCTGCCCTTTGTAAGCACCGTGCCCTCCAAGCTTCACCACCCATGCCCCAGCCGACTGGAGCGTTGTCAGCCACCCTTCAGCTTTCACCACGTGCTGTCCCTCACCGGGGACGCTCAAGCCTTCGAGAGAGAGGTGGGACGCCAGAATGTCTCTGGCAACCTGGACTCACCCGAAGGCGGCTTTGATGCCATTTTGCAGGCTGCCCTCTGCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000001281-Itgb7:NM_013566:4
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.086
Domain overlap (PFAM):
C1:
PF0036213=Integrin_beta=FE(13.3=100)
A:
NA
C2:
PF0036213=Integrin_beta=FE(18.7=100)
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:
CAGAAATTCCGGGTCCGCTTC
R:
AGTCCAGGTTGCCAGAGACAT
Band lengths:
358-1087
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: