MmuINT0084116 @ mm9
Intron Retention
Gene
ENSMUSG00000000157 | Itgb2l
Description
integrin beta 2-like [Source:MGI Symbol;Acc:MGI:1277979]
Coordinates
chr16:96655084-96656349:-
Coord C1 exon
chr16:96656192-96656349
Coord A exon
chr16:96655240-96656191
Coord C2 exon
chr16:96655084-96655239
Length
952 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGC
5' ss Score
8.05
3' ss Seq
CTGAGACACTTCTTCCCCAGGGA
3' ss Score
6.1
Exon sequences
Seq C1 exon
GCTTTGGATCCATTGTGAACATGACCTTCCAGCACATCCTGAAGCTGACTGCGGACTCCAGCCAATTTCAGAGGGAGCTGAGGAAGCAACTGGTTTCTGGAAAGCTGGCTACCCCCAAGGGACAGCTGGATGCTGTGGTTCAAGTTGCCATATGCCTG
Seq A exon
GTGAGCCTACTAATCCCTACCAAGGCTGCAGACTCCCTCAAGTCTGGAGCCTCTGGGGTGCTGCAAGCTGCTTACACTAGCCAGTGTTCTCTCAAAGGTGCAAGCCAATGGGCCCTTTGCTTGCTGTCAGCCTGAGAAGAATAACCCTCACTAGACCCCTAGAGAGCCACTGAAAGCAGGCTGGGAGGGAGAGAGGGAAGGAGGCAAAGGGACCTGGAAGCTACCTATAGATTTTATTATTAATCTGTGATGCCACTAACTCACCTGAAACCTGCCTAGACCTTCCCAAGTGACCACTGTAAGCTGAACCACACCTATGTGCTGAGTCAGGGGCCAATCTCACTTCCATGCCAAGACAGTAATCCCTGACCAGAGTTCACTCCTGACTCCTCTCAGACACACACCAGCCTTTATCGGTCCCAGGCTCTCTTTATAATGTCACTGCTGCAGCAAGCTGACTCTGCCCTGGCTCAGCTCTCAGCCCTCCATCCTCCCTGGGGCCCTGAACTTGCACTTAGATCATGGGCACATACCTTTTTCATGGTGTCAGACTACAGCGTGCTACAAGCACACACTCCTCTGCAAGGATGATCCTGGAAGATGCAGTCCCCCTGTGGTCCCTTCACTGAATTCACCTGTCGGGATGGACACCACAGTAGTCTCCTCCTTTTGGGAGAATATTTTTGGGCGTCTAGTCCTGGAGGAACGGGCTGTAGAAGTTTCAACTTTTTGGAAGTAGACGTGTGTTTCACGTCCTCTCACCTCACACTTTGGGCATCTTAGCAGACACATCTCAGAGTTGATCCTGACTCCCTCTTTCTGTTGTCTGGAGGCGGTGAAACCACAGAGGAGGAGAGGCAGAGGCTCCCCCTCTGCAAGCTGCCACACCTGGCTCCTTGGAGAGCCCAGCTGAGAAAGCACAGCAGGTAACTCTGAGACACTTCTTCCCCAG
Seq C2 exon
GGAGAAATCGGCTGGCGCAATGGGACCCGATTTCTGGTGCTTGTTACTGACAACGATTTCCACTTGGCTAAAGACAAGACTCTGGGTACCAGACAGAACACCAGCGATGGTCGCTGTCACCTGGACGACGGCATGTACAGGAGCAGGGGAGAACCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000000157-Itgb2l:NM_008405:6
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.212
Domain overlap (PFAM):
C1:
PF0036213=Integrin_beta=PD(5.6=15.1),PF0036213=Integrin_beta=PU(18.6=86.8)
A:
NA
C2:
PF0036213=Integrin_beta=FE(20.6=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:
GCTTTGGATCCATTGTGAACATGA
R:
TCTCCCCTGCTCCTGTACATG
Band lengths:
310-1262
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
Other AS DBs: