MmuINT0084168 @ mm10
Intron Retention
Gene
ENSMUSG00000020758 | Itgb4
Description
integrin beta 4 [Source:MGI Symbol;Acc:MGI:96613]
Coordinates
chr11:116003603-116005767:+
Coord C1 exon
chr11:116003603-116003734
Coord A exon
chr11:116003735-116005530
Coord C2 exon
chr11:116005531-116005767
Length
1796 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGT
5' ss Score
10.1
3' ss Seq
TGACCTCTCTCCCCACGCAGAGC
3' ss Score
10.92
Exon sequences
Seq C1 exon
TCCCTATCATCCCAGACATCCCCATAGTGGACGCCCAGGGTGGAGAAGACTACGAAAACTTCCTTATGTACAGTGATGACGTCCTGCGGTCCCCAGCCAGCAGCCAGAGGCCCAGCGTTTCTGATGACACTG
Seq A exon
GTGAGTGAGAACCCACCAGAGAAAGGTGGGGGTCCCTGGCGGGGCTGTCCCTGGTACCCAGAGAGATCAAACAAGCCAGCGACTGCTGGCATGGAGACTAAGAACAAAAGTGCCTTCTCATGGTTCTGAAGGGACAAAACTGCTGAAGGCTACATGTCAATATGTGTGTGCCTGTGTATGTGAGCGTATGGACGTCCACTTCGGGACTCTGACATTCCCGGGCTGGAGCATGTACACACAGGACAGCTTTACAACCTCCTGAAGGTTCACCTGCTGTGCTAGGTCAGGAAGGACACTCAGGCCACCTCCCAGAGGTGACTTTAGCCTTGATAGAGAAAGGAGGGGGAGCCAATAAGGTAGACACCCCCCCCCAACCCCGCTCTCTTCATTTTCCCTTGATTTCTCACACAATGTGGTACAAAAAGAGCCCTTAGCTGGGACTCCTCCTACTCCAGGGTTTGAGCTGGCTGTGCTGTTAGATGACTCTGAGTCTCTCATCCATCTCAGAACTAACTGGCCTTCAATTCTGTGAAATGAGATACAAACCACACAATGCCATCGGGAAGAAAGAAGTCCCTTTCTGAGTCTAAGGCCGGGGTGGGCACAGTCAGTCGTGAGCAGAGCTTGGCATGCTAAGTTGCTTTTTTTTTCTTCTTCTTCTTCTTCTTTTTTTCTTTTTCTGGTGTTGGGAAGGGTTTGAGGCAGGGTCTTGCTAGATTAAAACCCTGGCTGACCTTGAAGTTCTTACCTGTAAACCAGACTGCCCACAAATCTACAGCTAGTATCTAAACTACAGTTTTAAGAACCAGGAACCTCTGCTAAGATACTACTAGCACCCTAGGGCTTCTACGGCTATTCCAGGAAAACAGACAGGGGTGAGATTACTTTCCTTTGTACAGAAAGGAAACAGGCTCAGAGCTGATAAATAACCAAGGAAACTTCACGCTGGGAGGCAACGTAAGGCTTTCCCATGACTCCCGCAGCAGACCGGCCTTTGTGTCTCAGTAGAGGCCAAACCCAGTTTATCTGGAATGGCTGGAGCAGGCCAAGGGTTTTTCTTGTCATCTAAAGGGATACCCATACCCCTGGACGCCGCGTAAGTGCCGCAGGCCACCTCCTCCTCCTGACCCTCCCCGGCGGTGCCAACGCGGCCCTTCGTTGTTCCCAAGGCTGCGGCTGGAAGTTCGAGCCTCTGCTCGGGGAGGAGCTGGACCTGCGGCGCGTCACGTGGCGGCTACCCCCGGAACTCATCCCGCGCCTGTCCGCCAGCAGCGGGCGCTCTGACGAAGACGGCAGCGTTGCGGGGGGCGTGGAAGGGGAGGGCAGCGGCTGGATCCGCGGGGCTACGCCCCGACCCCCGGGAGGTGACCGCCTCCCCAGCCGCGCCCGCCTCTGGGGCCCTAGGCTCAATTGAGTTGGCTCACAATTTTGGTCACGCGGCCCACTAGAGTGCCCTGCCCGCCCAGAGTCTGTATAACTGCATTCAGACAAGCCCGGGAACTCAAGGGCGCCATGGGGAAGCGCTTGGGCTCTCCCCAACGGAGGATAAGGGCAGAGCTTCCAAGAAGCCAGAGTCCCTGCAGGGGAGTGAGCCCTAGCTGGGCTAAGTGCTCGGGTGGAGGACAGCATGGCGCAAGGAGACAGAACTGAAAGATTCGTGTGGTCTCCTGTTTGCCTGCGGGAACCCAGGGTCTTGGTAGTTTAAGGCTGCCCTGTGCAACCCCGGGGCCACCTCCTGCCCCATGTGGCCTGTCATCTGCTGTGGGCCTCACTGAATGACCTCTCTCCCCACGCAG
Seq C2 exon
AGCACCTGGTGAATGGCCGGATGGACTTTGCCTATCCAGGCAGCGCCAACTCCCTGCACAGAATGACTGCAGCCAATGTGGCCTATGGCACGCATCTGAGCCCACACCTGTCCCACCGAGTGCTGAGCACGTCCTCCACCCTTACCCGGGACTACCACTCTCTGACACGCACAGAGCACTCCCACTCAGGCACACTTCCCAGGGACTACTCCACCCTCACTTCCCTTTCCTCCCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000020758:ENSMUST00000021107:33
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.333 A=NA C2=0.487
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCCAGACATCCCCATAGTGGA
R:
TGGGAGGAAAGGGAAGTGAGG
Band lengths:
357-2153
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