MmuINT0083776 @ mm10
Intron Retention
Gene
ENSMUSG00000027111 | Itga6
Description
integrin alpha 6 [Source:MGI Symbol;Acc:MGI:96605]
Coordinates
chr2:71841067-71841328:+
Coord C1 exon
chr2:71841067-71841150
Coord A exon
chr2:71841151-71841248
Coord C2 exon
chr2:71841249-71841328
Length
98 bp
Sequences
Splice sites
5' ss Seq
AGTGTAGGT
5' ss Score
3.31
3' ss Seq
TTCCCATATATTTTTTTCAGGTT
3' ss Score
10.59
Exon sequences
Seq C1 exon
GAGAAGCAGCTGAGCTGTGTGGCCAACCAGAATGGCTCCCAAGCCGACTGTGAGCTCGGAAATCCTTTCAAGAGAAATTCCAGT
Seq A exon
GTAGGTGATGCCTCCCCACTGTCTTACTGTTCTGAATGCCAGTGCTGTGCCCAGAGGCCTGGCCATTGGTAACCGCTCTTCCCATATATTTTTTTCAG
Seq C2 exon
GTTACTTTCTATCTGATTTTAAGTACAACCGAGGTCACCTTTGACACCACAGATCTGGATATTAATCTGAAGTTGGAAAC
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000027111:ENSMUST00000028522:16
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.142 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF084417=Integrin_alpha2=FE(5.7=100)
A:
NA
C2:
PF084417=Integrin_alpha2=FE(5.5=100)
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:
CTGAGCTGTGTGGCCAACC
R:
CAGATTAATATCCAGATCTGTGGTGT
Band lengths:
144-242
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