MmuINT0083770 @ mm10
Intron Retention
Gene
ENSMUSG00000027111 | Itga6
Description
integrin alpha 6 [Source:MGI Symbol;Acc:MGI:96605]
Coordinates
chr2:71833696-71834070:+
Coord C1 exon
chr2:71833696-71833794
Coord A exon
chr2:71833795-71834008
Coord C2 exon
chr2:71834009-71834070
Length
214 bp
Sequences
Splice sites
5' ss Seq
ATGGTGAGT
5' ss Score
10.13
3' ss Seq
ATGTGTTTGATTTTATGCAGCCT
3' ss Score
6.41
Exon sequences
Seq C1 exon
ATCCCGGCCAGTGATTAACATTCTAAAAACCATCACAGTGACTCCTAACAGAATTGACCTCCGCCAGAAGTCCATGTGTGGCTCACCTAGCGGGATATG
Seq A exon
GTGAGTCCCTTTTCTGGGCGCTGGCTCAGTTCTCAGCTTGGCGATGAGCTCCTTGACATGATGAGCCACTGAGAAGGGGAAGGGTGCACTGGACAAAGGGACAAGTCGAGACACTGTCCAGCAGCCAGTGGGGACACTGGAGGGCTGGGGACAAGGTGGGGTCTTCCACTGCTACAGTGCATCTTTTAAGAAATATGTGTTTGATTTTATGCAG
Seq C2 exon
CCTCAAGGTTAAAGCCTGTTTTGAATATACTGCGAAACCTTCCGGTTATAACCCTCCAATAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000027111:ENSMUST00000028522:10
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=PU(6.7=94.1)
A:
NA
C2:
PF084417=Integrin_alpha2=FE(4.4=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:
TCCCGGCCAGTGATTAACATT
R:
CGGAAGGTTTCGCAGTATATTCA
Band lengths:
142-356
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