MmuINT0083783 @ mm10
Intron Retention
Gene
ENSMUSG00000027111 | Itga6
Description
integrin alpha 6 [Source:MGI Symbol;Acc:MGI:96605]
Coordinates
chr2:71845973-71846262:+
Coord C1 exon
chr2:71845973-71846083
Coord A exon
chr2:71846084-71846163
Coord C2 exon
chr2:71846164-71846262
Length
80 bp
Sequences
Splice sites
5' ss Seq
GAGGTGCGG
5' ss Score
6.79
3' ss Seq
ACACCTCTTGTCACCCATAGGAA
3' ss Score
10.3
Exon sequences
Seq C1 exon
AACTGCAGCGTCAACGTGAGGTGTGTGAACATCAGGTGCCCACTGCGAGGGCTGGACAGCAAGGCCTCTCTCGTTCTTCGTTCCAGGTTGTGGAACAGCACATTTCTAGAG
Seq A exon
GTGCGGCTCTGCCTCCTGGGAGAATTTACTACTGCCGGGGACATTTGTCACTTTCCTAACACACCTCTTGTCACCCATAG
Seq C2 exon
GAATATTCCAAACTGAACTACTTGGACATTCTCCTGAGGGCTTCCATAGATGTCACCGCTGCTGCTCAGAATATCAAGCTCCCTCACGCGGGCACTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000027111:ENSMUST00000028522:22
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(2.5=32.4)
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:
AACTGCAGCGTCAACGTGAG
R:
CAGCAGCGGTGACATCTATGG
Band lengths:
175-255
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