MmuINT0084110 @ mm10
Intron Retention
Gene
ENSMUSG00000000157 | Itgb2l
Description
integrin beta 2-like [Source:MGI Symbol;Acc:MGI:1277979]
Coordinates
chr16:96422957-96425096:-
Coord C1 exon
chr16:96424903-96425096
Coord A exon
chr16:96423119-96424902
Coord C2 exon
chr16:96422957-96423118
Length
1784 bp
Sequences
Splice sites
5' ss Seq
TAGGTAAGG
5' ss Score
9.31
3' ss Seq
GGTTCATGCTTTCTCCTTAGTGT
3' ss Score
7.93
Exon sequences
Seq C1 exon
CTCCTGTGCCAGGTGCTTGAAAGACAACAGTGCAATAAAATGCAGAGAGTGTTGGAATCTGCTGTTTTCCAACACCCCCTTCAGTAACAAGACCTGCATGACTGAACGGGACTCAGAGGGCTGTTGGACAACCTACACTCTATATCAGCCAGACCAGAGTGACATCAATTCCATCTACATAAAGGAGAGCCTAG
Seq A exon
GTAAGGCTGGATCTGTTGTGGGTAGGACATGGTGATAAGAACTCTGGCCACGGGTGTCTCTGCAGATATCGAGAGGGCTGCAGAGGGAAGGTCTCTTCTCCAATGGGTAAGGACACCCAGCAGCAAGAGGAGAGCTATCCAGGATACCTGGGCAGGTATATAATACAGGGAGGCTGGCATCCATAGCCATACTTAGCCCTGCACTGAGGGACAACAGACAGGGTCCTCTGGGGTAGCTCCAGTATGTGTTGAGCAGGAGACCACTGAAGCATCCCACCACATAGTGAGGCCATCTCCCATTTGATGGGAGGGCCCTAAGGGCTGGTGCCTGTTAGCTATTTTATGACACCTATGGGGAGCCTCAGATAAGTAGGGGGTACTTCTTCCCACAGCTCTTTTGGGCCCTACTAAGCTCAGGTCCCTGTCTGCGAACTAGAGATGGTGACCTGGTCTTCACAGGGTTCATGTTCCAAAGAGAAAAGACTCCTGACGTGGTCCTGTCAGTCAATGCCCTGCACAGGGTGATGCTACAACAGCAGTTAAAATGATACAAAGACCCCGTGGTGAGAGGCCCCTTCTCATGTGGAAAAATGGGATCATTGGAACAAGGAAGTCTTCTGTTCCTGAGCATGCCAGGGAGCCATTAGGTGTTCCCAGAAGAAGACTGGCAACATCCACATTGTCTTGTTTAATCCCAGCTGGCATCCAGGGTAGACACAGCCCTTTCAGTGACAGAACTCTCAGGAAACAAGGTAGACATGATGTTGTCAGGGACCAGGTAGATATAATAGTGACATAGTCCTGACAGGGTACAGGGTTATATAATCCTATCAGGAGCCAGGAAATAGTCCTCTCAGGGTGTCAGGTGGTTGCTTCCCTGTCAGGTGTACACTACCCTGTCAGTCAGTACAATGTGGGTCTGTACTGTCTAGGACCAAGAGGACACAGTCCTGTCTGGAGCTGAGATAGACATGCTCCTATCCAGTATCACTGCTTGGTCAGGAATAACAGATAGGAGATGGACAGACTGAGTCTGGAAGGACAGACACTATATACTTGGATAAAGATGGTTGAATAGAAGTAGAGGACCTGGTAAGAGTTTAAAAGTCCAGGGTTCTCCAGCAGATAGGATGGGAAGTTGGGGATTAGAGCGGTTGGAAGAAGTGTTAAATAACAATGGCCAAAGATGTTAAAGATGCTGCATTTGAGCAAAAATCAAGATGACCTCACAGGTCTTAGGTGTGCAACCCCAGAATTCTAGTTCCCCATGCCATCCACACTTAGAGGGTTGAAGGGACAAAGGTAGCAAAGTCACTCGGGTAACCACAGAATATGCAGCCTGCAGTACACAGTGACACTTACAGGACAGAGACTTGGAGTCCACTGTTCCCCAACCCTTCCTCAATTTGGGAACCCGTGAGAGTAGGGAGGGAGGCACAGACTGTGAGGAACCTGAAGCTGAGGACCTGTCCTCAGGCTATAAGCAGAGACCTCCCCAGGGGTCTCCATTTCCACTGTGCAGTGAGATGGCTTAGGGTCCTTCAAGCATGTTCCTAACCTTCTCTGTGAATAAGGGACCAAGTCCAATGGCCTTTAAGTATTGAAGGTCACAGGGACTGGCCTTGATTGTGATGGGGGCTGAGGCTATGTTCTCTTGTCTACCTGTGTTGTGGGGCAGACAGCAACTCTCTGGAATGGGGTCCTTCTGAGGACTGGGTGACATACAGAGACTGTAGACTTTTGGGTAAGACTCACACTACTGATGGTTCATGCTTTCTCCTTAG
Seq C2 exon
TGTGTGCAGAAATCTCCAATACCACCATCCTACTGGGCGTTATAGTGGGCGTCTTGCTGGCTGTTATCTTCCTGCTGGTTTACTGTATGGTTTACCTGAAGGGAACCCAGAAGGCTGCCAAGCTCCCCAGAAAGGGTGGGGCTCAAAGCACACTGGCACAGC
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000000157:ENSMUST00000000161:14
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=0.054
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
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:
CTGTGCCAGGTGCTTGAAAGA
R:
CTGTGCCAGTGTGCTTTGAGC
Band lengths:
352-2136
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