MmuINT1021455 @ mm10
Intron Retention
Gene
ENSMUSG00000020758 | Itgb4
Description
integrin beta 4 [Source:MGI Symbol;Acc:MGI:96613]
Coordinates
chr11:115984037-115985098:+
Coord C1 exon
chr11:115984037-115984201
Coord A exon
chr11:115984202-115985021
Coord C2 exon
chr11:115985022-115985098
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:ENSMUST00000021107:12
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=0.000
Domain overlap (PFAM):
C1:
PF0036213=Integrin_beta=PD(11.9=90.9)
A:
NA
C2:
NO
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
- 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