MmuINT0084112 @ mm10
Intron Retention
Gene
ENSMUSG00000000157 | Itgb2l
Description
integrin beta 2-like [Source:MGI Symbol;Acc:MGI:1277979]
Coordinates
chr16:96438464-96438800:-
Coord C1 exon
chr16:96438740-96438800
Coord A exon
chr16:96438553-96438739
Coord C2 exon
chr16:96438464-96438552
Length
187 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGT
5' ss Score
10.1
3' ss Seq
CACCCAACCTGTCTCTGCAGCAC
3' ss Score
8.55
Exon sequences
Seq C1 exon
GACATGCTGGGCCAGTGCACTCTGCTACCTGTCCTAGCTGGGCTGCTGTCTCTGGAATCTG
Seq A exon
GTGAGTTCTAGGATCTCCACATGAGGTTTTTCAGAAACAGTAGGCACACCTCATGGGCATAACAGCTCCAAGCCACTAGGAGCTGTAGATCCTGACCTAACCTTTCCTGGGTCTCTTCCCACCCACTCCTATTGACTCTGGATCAGCTCGGGTGGGCAGGACCTACTCACCCAACCTGTCTCTGCAG
Seq C2 exon
CACTGTCTCAGTTGTGTACCAAGGACAATGTGAGCACCTGTCAGGACTGTATCCGGTCAGGGCCCAGCTGTGCCTGGTGCCAGAAGCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000000157:ENSMUST00000000161:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0143720=PSI=PU(35.7=83.3),PF0036213=Integrin_beta=PU(11.6=56.7)
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:
GACATGCTGGGCCAGTGC
R:
CTTCTGGCACCAGGCACAG
Band lengths:
147-334
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