MmuINT0083774 @ mm10
Intron Retention
Gene
ENSMUSG00000027111 | Itga6
Description
integrin alpha 6 [Source:MGI Symbol;Acc:MGI:96605]
Coordinates
chr2:71840562-71840975:+
Coord C1 exon
chr2:71840562-71840677
Coord A exon
chr2:71840678-71840785
Coord C2 exon
chr2:71840786-71840975
Length
108 bp
Sequences
Splice sites
5' ss Seq
AATGTAAGA
5' ss Score
5.55
3' ss Seq
CTTTCTTTTTTTTTTAATAGTCA
3' ss Score
8.75
Exon sequences
Seq C1 exon
GTCCACTTCTTAAAGGAAGGATGTGGAGACGACAATGTCTGTAACAGCAACCTTAAGCTAGAGTATAAATTTGGTACCCGAGAAGGAAATCAAGACAAATTCTCTTACCTTCCAAT
Seq A exon
GTAAGAGTCACAAGCAGAAGTAACAGACCTCTAGGCTTTGGTTACAGAAGTAACTGAACATGGGTTGAGATTGTCTTTGTCTCTCTTTCTTTCTTTTTTTTTTAATAG
Seq C2 exon
TCAAAAAGGCATCCCAGAATTAGTCCTAAAAGATCAGAAAGATATAGCTCTGGAAATAACGGTGACCAACAGCCCTTCGGATCCAAGGAATCCCCGGAAAGATGGCGACGATGCCCATGAAGCCAAACTCATCGCCACGTTTCCAGACACTCTGACATATTCCGCTTACAGAGAACTGAGGGCTTTCCCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000027111:ENSMUST00000028522:14
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.057 A=NA C2=0.344
Domain overlap (PFAM):
C1:
PF084417=Integrin_alpha2=FE(8.0=100)
A:
NA
C2:
PF084417=Integrin_alpha2=FE(13.2=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:
AGGAAGGATGTGGAGACGACA
R:
TGGAAACGTGGCGATGAGTTT
Band lengths:
248-356
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