MmuINT0084119 @ mm10
Intron Retention
Gene
ENSMUSG00000000157 | Itgb2l
Description
integrin beta 2-like [Source:MGI Symbol;Acc:MGI:1277979]
Coordinates
chr16:96428969-96430655:-
Coord C1 exon
chr16:96430566-96430655
Coord A exon
chr16:96429110-96430565
Coord C2 exon
chr16:96428969-96429109
Length
1456 bp
Sequences
Splice sites
5' ss Seq
AGTGTGAGT
5' ss Score
6.96
3' ss Seq
TGGCTTCTGTCTGCCCACAGAAA
3' ss Score
11.71
Exon sequences
Seq C1 exon
AAACTTACCACATTCATCCCCAAGCTGACCATTGGGGAGCTGTCAGATGACTCCAGCAACGTGGCACAGCTCATCAGGAACGCCTACAGT
Seq A exon
GTGAGTCTCCTGGAGAAACTTCATGAGATGATCAGAACTCCACAGTTAGCAAAGCCCTGACCTGTGAAACCCCGTTGTTGTCCCCTGCAGCCCCTCCAGGCACCTCACAGTCTTCTAGACAGACACAGAGCACAGGGCAGCTCCTCTTAGTGGTGTATAGCACCCCAGATCTCATCTGACTCTCCCTGAAACATGAGTTCCAAGCCCTACTCAAATGGGGCTCTTCCTTGTCAGCCACTATGGAGATATAAGAGGGCAGATGGCTAGGAAAGAGCACACACTGCCTCACAGGCTGGAGAGACCTCAGAAACCACCTCAGTAGATTTGCACCCTCTGTATACAGCCTTGGGGGGGGGGGTCTGTTCATTACTGTGTTAAAGTAACTTGGGGGAAAGGATGTTATTTAGCTTAAACCTTGCTGTCTATTGTCAAAGGACAGGAAGGCAGGAACTTAAGCAGGAGCCTGGAGGCAGAAACTGAAGCTAAGGTCATGGAGGAACACTGCCTACTGGCTTGCTCCCAGTATCTTGTTCAGATACTTTTCTTATATAACCCAAGCCCACCTAGCCAGGGATGACACCACCCAGAGTGCATGCAGGACCCTTCTGCATCAATTAGCAATTAAGAAAATGTTCCACAGACATGCACAATCTGACAAAGGCAATTCCTCAATTGAGGTCGCCTCTTCTAAGGTGACTCTGGTTTGTGTTAAGATGACAAAAAGCTAATCAGCACAGAACCTCATGCATGCCAGCCCCTAACCCTGCCTCAGACAGACCCTGAGTCCACCCTCCTCCCTGGTATGTAGTCTGTACAACTGCATCCAGGTTCATTCCCTTGGAGTCCCAGGGTTCTGGCAGACACTGGCATGCACCAAACACTGCTCACTGCTCAGAACCCATTTAGTCCCTACAAATAACAGAAATTCACAGGCGACAGGTATTCTCAAATTCTGACCTAGGCTCCTATGCGGGCTGGCAGCACAAGTGTGTGCTGTTACTGATCAAGGAAAGGTCTCATTTCCTTCTCTAGCCTTGTGAGCCTCAGGTGCCCCAAGAAGGCTCCTGTACCTGGTCACTGCCCAGTCATGTCTAGCTCTGTCTTCACAGGGTTGACTCCAGTGACATCATCATTACATACACACCAGATGTCACCTGTCCCTTCTCCTTCCACCTATATCTCATCTCTCATCGCTTCAACAGTCTGTGCCCCCTTCTCTGCTAACCCTGGAACTGATCAGCAGCAGGACCTCACAGGGATCACAGCTGTGTCTATGCTGGTCACCTGCCAGTAGCCATGGCATCAGCCTGCTGTCCTATCCTGACACATTCACTGGGCTCCCAGTGGGTGTCTGTGTCATCAACACAAACAGGAGGGACGTGAGAAGTATCACAGTACTTAGGGACAGGGACAGCTGGACCTGTAACTCCTGAGTATGGCTTCTGTCTGCCCACAG
Seq C2 exon
AAACTCTCCTCCATTGTTGTGCTGAACCACAGCACCATCCCCAGCATCCTGAAAGTTACCTACGACTCCTACTGCAGCAATGGAACATCAAATCCAGGCAAACCCAGCGGGGACTGCAGTGGTGTACAGATCAATGACCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000000157:ENSMUST00000000161:9
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=0.043
Domain overlap (PFAM):
C1:
PF0036213=Integrin_beta=FE(11.7=100)
A:
NA
C2:
PF0036213=Integrin_beta=FE(18.6=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:
AACTTACCACATTCATCCCCAAGC
R:
CTGGTCATTGATCTGTACACCACT
Band lengths:
230-1686
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