MmuINT0083808 @ mm10
Intron Retention
Gene
ENSMUSG00000025348 | Itga7
Description
integrin alpha 7 [Source:MGI Symbol;Acc:MGI:102700]
Coordinates
chr10:128953443-128953858:+
Coord C1 exon
chr10:128953443-128953556
Coord A exon
chr10:128953557-128953759
Coord C2 exon
chr10:128953760-128953858
Length
203 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGG
5' ss Score
8.41
3' ss Seq
GTCTCTTCCTATCCCTTTAGGAG
3' ss Score
11.21
Exon sequences
Seq C1 exon
GACTGCGCCCAGGGCACGGCCAAGTGTGTGGTGTTCAGCTGCCCACTCTACAGCTTTGATCGTGCAGCCGTGCTTCACGTCTGGGGCCGCCTCTGGAACAGCACCTTTCTGGAG
Seq A exon
GTGAGGGCACCACTGGGGTTCTAGGCTGGGTGTCTTCTGCAAAAGCCCCATTGAAGTTTGCTTTTTCCCCTTTCACATCCAAATCCAGCACTCTGTAAAGACACGTTTACCCTCTGCCTTGGCACCATTTTGTCTGTAATCTCAGGCTGGGGAGGGTTGAGGGAACATGGGCATTGAGAAGGAGTCTCTTCCTATCCCTTTAG
Seq C2 exon
GAGTACATGGCCGTGAAATCCCTGGAAGTGATCGTCCGAGCCAACATCACAGTGAAATCCTCCATTAAGAACTTGTTGCTCAGAGATGCATCCACAGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000025348:ENSMUST00000099112:22
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:
PF084417=Integrin_alpha2=PD(2.6=34.2)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGCCAAGTGTGTGGTGTTCAG
R:
CACTGTGGATGCATCTCTGAGC
Band lengths:
196-399
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