MmuINT0083778 @ mm9
Intron Retention
Gene
ENSMUSG00000027111 | Itga6
Description
integrin alpha 6 [Source:MGI Symbol;Acc:MGI:96605]
Coordinates
chr2:71679536-71679803:+
Coord C1 exon
chr2:71679536-71679613
Coord A exon
chr2:71679614-71679700
Coord C2 exon
chr2:71679701-71679803
Length
87 bp
Sequences
Splice sites
5' ss Seq
CGGGTAAGT
5' ss Score
10.75
3' ss Seq
GTGTTTTTTTAATTTGACAGAGT
3' ss Score
6.95
Exon sequences
Seq C1 exon
AACAAGCAATCAGGATAATTTGGCTCCAATTACAGCGAAGGCAAAAGTGGTTATTGAATTGCTTTTATCGGTCTCCGG
Seq A exon
GTAAGTGTTGTGTTTGGCATAACAAATCAATGTTTGAAAGAACCATTTATAATTCCCACTGAAACGTGTGTTTTTTTAATTTGACAG
Seq C2 exon
AGTCGCTAAGCCTTCGCAGGTGTATTTTGGAGGTACAGTTGTTGGTGAGCAAGCTATGAAATCTGAAGATGAAGTAGGAAGTTTAATAGAGTATGAATTTAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000027111-Itga6:NM_008397:18
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF084417=Integrin_alpha2=FE(5.5=100)
A:
NA
C2:
PF084417=Integrin_alpha2=FE(7.1=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACAAGCAATCAGGATAATTTGGCT
R:
ACTTCCTACTTCATCTTCAGATTTCA
Band lengths:
159-246
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
Other AS DBs: