MmuINT0084143 @ mm9
Intron Retention
Gene
ENSMUSG00000020758 | Itgb4
Description
integrin beta 4 [Source:MGI Symbol;Acc:MGI:96613]
Coordinates
chr11:115867211-115867924:+
Coord C1 exon
chr11:115867211-115867369
Coord A exon
chr11:115867370-115867774
Coord C2 exon
chr11:115867775-115867924
Length
405 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGTA
5' ss Score
5.89
3' ss Seq
CGTGGCCTTCAATAATCCAGATT
3' ss Score
4.84
Exon sequences
Seq C1 exon
GCCTCCCTCCTATCTGGGAAGATGGGAGGAGCAGGCTTCCGCTGTCCTGGACTCTTGGGTCCTTGAGCCGGGCTCACATGAAGGGTGTGCCCGCATCCAGGGGTTCACCAGACTCTATAATCCTGGCCGGGCAGTCAGCAGCACCCTCCTGGGGTACAG
Seq A exon
GTAGTACAGGGGGTGGTCACCATGGATCCATGGCTGTCACGCTCCATTTGTCACCCAGCTACCATCACAGCCTGTGCCTGTGCACTCCCTCACTGCTTCATCGCATACAGAACTCCAGTTCACCCACAGGAGCTAACCACTGCCCTGCCTGCCCACCCCCATCAGTGCTGAAGCCTAACACATCTGCCCTCCTGGGGTATAAAGCAAAAGAGCTGGGCAAGGCGCAGGGCCAGTTGTAGAGGGGATGGACTGAGGAGACTAGCAGACTCAAGGGGAAGTGTAGAGCAGCCTGGACAGGTTAATGTGAAGCCATAATATGACTGGAGAGGCAAGCACGGGGTAGACTGTAGCTCATCTCAGACCACAAACCCGGTCTTGGACTAACCGTGGCCTTCAATAATCCAG
Seq C2 exon
ATTCCCGTGGGGCTGTGGGTGTGCCTGACACACCCACTCGGCTGGTGTTCTCTGCCCTGGGGCCCACGTCTTTGAAGGTGAGCTGGCAGGAGCCACAGTGTGATCGGATGCTGCTGGGCTACAGTGTGGAATACCAGCTACTAAACGGCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000020758-Itgb4:NM_001005608:34
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.259 A=NA C2=0.154
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0004116=fn3=PU(48.8=80.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCCTCCTATCTGGGAAGATGGG
R:
CGCCGTTTAGTAGCTGGTATTCC
Band lengths:
305-710
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
Other AS DBs: