MmuINT0084166 @ mm10
Intron Retention
Gene
ENSMUSG00000020758 | Itgb4
Description
integrin beta 4 [Source:MGI Symbol;Acc:MGI:96613]
Coordinates
chr11:116000543-116003524:+
Coord C1 exon
chr11:116000543-116000680
Coord A exon
chr11:116000681-116003341
Coord C2 exon
chr11:116003342-116003524
Length
2661 bp
Sequences
Splice sites
5' ss Seq
ACCGTAAGG
5' ss Score
6.08
3' ss Seq
AGTACTGTCCCTGCCTCCAGGAC
3' ss Score
9.76
Exon sequences
Seq C1 exon
TACCCAGCGAGCCAGGGAGGCTGGCTTTCAATGTAGTCTCTTCTACGGTGACGCAGCTGAGCTGGGCAGAGCCAGCTGAGACCAATGGCGAGATCACAGCCTACGAGGTCTGCTATGGACTGGTCAATGAGGACAACC
Seq A exon
GTAAGGACCAGATTTTCCCGGCTTCCTGGAGAAGGAGGGACATGGAGGCGGAGGGAGGGGTGGGGTACTGTGTCATTTCTGCCGTGTGGGCCCCTTTGTCCCAGTCAAGCCTGAGGCACTGCACATTCATTCTTTTCATTTTGGTCCGCTTTGTGCTGGTTTGCATTCCAAGGGAACTGAGATTCTGTGTATTCCCTAGGGTCACTGGCCTGGGGTGGGGATTACCTTTCTGTACAGGGAGCCACGGTTACATTGTTACACATCTCTCTTAGGGCCAGAAGAGCGGCCAGATTTAGCGGGATGTGAGGCAGGATGGCCACTTGGGCCCAAGAGTTTGAGGGCAGTCTCAGTAAAGTAATAAGAACCCTTCTCAGAAAAACAAACAAACAAACAAACAAAAACAGGTCAGGTCTGAGAACGTAGCTCAATTGGTAGAGTGCTTTGCTTGCCTGGCACAGAAAAGGCGCTGGCTTCAACTGCCCATGCAACATACATTGGCTGTGGTAGTGCACACCCAGCATGCAGGAGGTGGGAGGCAGAGAGGTCCATTCAAAGCCATCACTGGCTACATAGCAAGTTCGAGGCCAGCCTGGCATACAAGAGACCCTGTCTCAGAAACTGAACGGTGCGCACGCATGCACACACACACACACACACACACACACACACACAAAGAGAAACAAAGCAACAGAAAAAAACGCAGAAAGTCTTGAATTTCAAATACATTTCTGTTTTTAGACTAGCTCGTTCGTTCAAGGACCAGGAGTATAACTCAGTGGCAGAATGCTTGCCTCACATGAGCAAGGGCCTGGGTTCAAACCCCAGCATTTCCCCCTCGCCACCATCCCAGATTTCATTCAGTCTAATATATTATCCGGCAACCATTCCTGGAAGGGAAACAGTGGCTGCACAGCAGTCCCTGCCATCGATAGGGAACCGTGAGAGTACCCCACCTCTCCTCTAGGGAAGAGACTCAAAAGTGCTCACTTCAGCTGGCTGGTCCCAGGGAGGGAGGTCGGCTCCATACTGCCAAGAGACGCCGTGGGTCTCTGTCAGCAGGTGTCTTCTGGGGGAAGTGTGCGCTGCCTTGGCACTTCTTACCAACCAGACTAGCCAGGAACCCAGCCTACAGCCCAGTGACAACTCATCTCTGGTGGTTTCCTCGTGGCTCCAGCCTGTTGAGGCCCCAGCTACATTACAAATGTGCTGGGCCACCTCCTCCCAACCCCAGGGTGTCCGTGCTTTGGAATGTACCCTCTCCCTCCACTTATGAGCTCCCACAGATGTGACAGATGCTCTACCATGGTGGCTAGACACCTTCCTTTCAGGCTGATGGCCCTTTGCCCGCCACTGCTCTGCATGTGGGTGTGGGTTGTCTGTCTTCTTTAACCCCCGATGGCCTCAAACTCAAGGCAACCTCTCTCTCCTCTCGGCTTTAGCTTCCTGGATGCTTTAATTACAGGTTTACCTCTGAGGTACTACTTGATGACTTTAAAAACAACAACAAACTATAATCGCACCAGATAGGCCTGGCTGATGTGGAACTTGATCAGTAGACTGAGTTGACCTCTCAGCTCAGAGAAGTTCTCTTGTCTCTGCAACCCTAGTGCATTCCCGAGCCCTGCTTGCTTTAAAATAATGTATTATTGCTGGTGGTGGTACACACCTTTAATCCTAGCACTTGGGAGGCAGAGGCTGGAGGATCTCTGAGTTCAAGGCCAGCCTGGTCTACGGAGTGAGTTCCAGGACAGCCAGGGCTACACAGAGAAACCCTGTCTCGAAAAACCAGTGTGTGTGTGTGTGTATGTGTGTGTGTGTGTGTGTGTGTGTGTGTATGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTATGTGTGTTTGGGTCAGAGGACAACTTTCAGGAGTCAGTTCTCTCCTTCTACCATGTGGAGTCCAGAGATCAGGCTTGTGCTGTGAGCGCATAATCCACGGCACTGCGTTACCAGTTCCTGCGCCCGCTACCTCTTGACCAGTTGTGTGCTGTGAGGGTGCACATGAGACTGTGAGATTGTCCCTTTCCAAAACACCTTAGGAAATCGGGGCATTAGCTTCTTTTTGTGCTTCTCTGGCTTTTGGAATGCTTTCTCTCTGGAGCTGGCTCGTCAGCCTTGAGCACAGGGTGGAAGGCATGGTCTTCCTTGCCTGCCACCCAGCCTTGATGGGCGTGCCTTGTGTGCACATGCATTAGCCAATCAGTAGAGGCTGTGGCGTGTTTACCTTGCATCTAAACATGGCTCTGCCACTCAACAAGGAGTCCTTCTGAGAAAGCTGACAATGCTATTTTCTTACACCTCTTACACATGGGTTTTTGTTTTAGATTGATTGATTTATTATGCATGCATACCTGAAGGCCAGAAGGGGGCACCAGATCTCATTACACATGGTTGTGAGCCACCGTGTTGGTGCTGAGAATTGAACTCAAGTCCTCTGGAAGAGCAGCGAGTGCTCTTAACCTCTGAGCCATCTCTCTAACCCCCTGCACACACAGTTTTATGCACTCACCAGGAGGAAAGAGTTCAGCAGCTGCATGCTCCCTAGCATCTCCAGGAGCCAGTGATGGATCTGGGGCCAGGCTGAACACTGGTGGTCCCCCTTAAGTACTGTCCCTGCCTCCAG
Seq C2 exon
GACCCATTGGACCTATGAAGAAGGTGCTCGTGGACAACCCCAAGAACCGGATGCTGCTCATTGAGAATCTGCGAGAATCCCAGCCATACCGATACACGGTTAAGGCGCGCAATGGGGCAGGATGGGGACCCGAGAGAGAGGCTATCATCAACCTGGCTACACAGCCCAAGCGGCCCATGTCCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000020758:ENSMUST00000021107:31
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.064 A=NA C2=0.228
Domain overlap (PFAM):
C1:
PF0004116=fn3=PU(48.9=93.6)
A:
NA
C2:
PF0004116=fn3=PD(50.0=72.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
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