MmuINT0084146 @ mm9
Intron Retention
Gene
ENSMUSG00000020758 | Itgb4
Description
integrin beta 4 [Source:MGI Symbol;Acc:MGI:96613]
Coordinates
chr11:115845351-115846412:+
Coord C1 exon
chr11:115845351-115845515
Coord A exon
chr11:115845516-115846335
Coord C2 exon
chr11:115846336-115846412
Length
820 bp
Sequences
Splice sites
5' ss Seq
CTGGTAAGA
5' ss Score
9.45
3' ss Seq
ACATCCTGATCTTGTTCCAGCAA
3' ss Score
6.72
Exon sequences
Seq C1 exon
GGCACATACAATGTGCATCTCCGGGCAGTGGAGGACATAGATGGGACACATGTGTGCCAGCTGGCTAAAGAAGACCAAGGGGGCAACATCCACCTGAAACCCTCCTTCTCTGATGGCCTCCGGATGGACGCGAGTGTGATCTGTGACGTGTGCCCCTGTGAGCTG
Seq A exon
GTAAGAATCAGCCTTGCTGTGGGGAAGGAAGGGAGGAGCTGGGCCCTGCACTAGGACCCTGGGTAAAAGAGATGGAACCTCCTATGGATACACATCCCTGGAGGGCTGTCCCAAGTCACAGAGAGCAGCAGAAGTGTCCAGTGGCAAAGCCAGGCATAAAAGAAACACTTGTAGCCGAGCGTGGTGGCGCACACCTTTAATCCCAGCACGTTGGAGGCAGAGGCATGCGAATTTCTGAGTTCCAGGCCAGCCTGGTCTACAAAGTGAGTTCCAGGATAGCCAGGGCTGTACAGAGAAACACTGTCTTGAAAAAAAAAAGAAAAGAAAAGAAAAGAAAGGAAGGAAGGAAGGAAGGAAGGGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAGAAATACTTGTAACCAAGCATTTAGGAGGCTGGAAAAAGAGACCAGTCTGGGCTATATAGAAAGTTCCAGCCTGGCAGTGGAGGTGCAGAGGCAGGCGGATCTCTGAGTTCAAGCCCAGCCTGGTCTGCAGAGCCAATTCCAGGACAGCCAGGGCAACACAGATAGATCTTATCTTAGAAGAAAAAAAATCAAAGCAAAACAAACAAAAACAGAAAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGTTCCAGACCAGCCTCAGCTACATAGTGAGACCTTGTCCCCTACCCACCAAATGTGCTCAGTGGCTCTGTCCCTCCTTCTATTTGTGGACACATCCTGATCTTGTTCCAG
Seq C2 exon
CAAAAGGAAGTTCGATCAGCTCGCTGTCACTTCAGAGGAGACTTCATGTGTGGACACTGTGTGTGCAATGAGGGCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000020758-Itgb4:NM_133663:11
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0036213=Integrin_beta=PD(11.9=90.9)
A:
NA
C2:
PF079748=EGF_2=PU(77.8=80.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACATACAATGTGCATCTCCGGG
R:
CAGCCCTCATTGCACACACAG
Band lengths:
239-1059
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: