MmuINT0083809 @ mm9
Intron Retention
Gene
ENSMUSG00000025348 | Itga7
Description
integrin alpha 7 [Source:MGI Symbol;Acc:MGI:102700]
Coordinates
chr10:128390816-128391127:+
Coord C1 exon
chr10:128390816-128390914
Coord A exon
chr10:128390915-128391001
Coord C2 exon
chr10:128391002-128391127
Length
87 bp
Sequences
Splice sites
5' ss Seq
GTGGTCAGT
5' ss Score
4.85
3' ss Seq
TTGAGCTTCTTGTTTCTCAGATT
3' ss Score
8.19
Exon sequences
Seq C1 exon
GAGTACATGGCCGTGAAATCCCTGGAAGTGATCGTCCGAGCCAACATCACAGTGAAATCCTCCATTAAGAACTTGTTGCTCAGAGATGCATCCACAGTG
Seq A exon
GTCAGTTGCCAGGCTGGTGGATGTGGTGGGTGGACGGGGACTCTCCTCCTTCCACTCACTCCAGCTTTTGAGCTTCTTGTTTCTCAG
Seq C2 exon
ATTCCAGTGATGGTGTACTTGGACCCCATGGCCGTGGTTGTGGAAGGAGTCCCCTGGTGGGTCATCCTCCTGGCAGTGCTGGCTGGGCTGTTAGTCCTGGCCTTGCTGGTACTGCTGCTGTGGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000025348-Itga7:NM_008398:23
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF130441=DUF3904=FE(26.0=100)
A:
NA
C2:
PF130441=DUF3904=FE(33.3=100),PF151761=LRR19-TM=PU(47.1=78.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCGAGCCAACATCACAGTGAA
R:
CAGCAAGGCCAGGACTAACAG
Band lengths:
172-259
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: