MmuINT0172923 @ mm10
Intron Retention
Gene
ENSMUSG00000026175 | Vil1
Description
villin 1 [Source:MGI Symbol;Acc:MGI:98930]
Coordinates
chr1:74427479-74428255:+
Coord C1 exon
chr1:74427479-74427623
Coord A exon
chr1:74427624-74428066
Coord C2 exon
chr1:74428067-74428255
Length
443 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGGA
5' ss Score
9.79
3' ss Seq
GGCTGTGGGGCTCTCCACAGGTC
3' ss Score
8.59
Exon sequences
Seq C1 exon
GCTGCAGGAGGAAAACCAAGTCATCACTCCTCGGCTCTTCGAGTGCTCCAACCAGACCGGACGCTTTCTGGCCACAGAGATCTTTGACTTCAATCAGGATGACCTGGAGGAGGAGGATGTGTTCCTATTGGATGTCTGGGACCAG
Seq A exon
GTAGGACAGGAGGTCCGGGGACTAACCTTCCCCACCTTGGTTCCTACCATTAAGAGATTCCAGTAGCTTTAGGGTAGGGAAATGCCAAGGTCTTGGAGGGGCGTGGGGCATTCTTCTTCTTTGTGGAGGAGGAGGGAGAAACAGAGGGACATCCCACAACTTATTTCCCACAGAAGCAGGAACATTGTCAGGCATACTGTGCTCTTGTGGCAGAGGAGTACCACATGTTCACTAGCTGTCTAAGGAGCAGCGTGTGACCAGCCTCATTTCCCAGATGTAAAGTCAAGGTCAAAACAGGCCTTGCTCAAGGTCATTAGCTGAGCAGCAACAGGTCTTTCTAGCTGGGCATCGGGGATGAGCCAAGGCAGAGCCGGAAGGCATGGAGACTGCCCAAACTGATCACCACGCAGGAAAGGACTGAGGGGCTGTGGGGCTCTCCACAG
Seq C2 exon
GTCTTCTTCTGGATAGGGAAACATGCCAATGAGGAAGAGAAGAAGGCTGCAGCTACAACTGTACAAGAATACCTCAAGACCCACCCTGGAAACCGAGACCTTGAGACCCCTATCATCGTGGTGAAGCAGGGACACGAGCCCCCCACCTTCACAGGCTGGTTCCTGGCTTGGGATCCCTTCAAGTGGAGT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026175:ENSMUST00000027366:16
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.041 A=NA C2=0.222
Domain overlap (PFAM):
C1:
PF0062617=Gelsolin=PU(33.3=53.1)
A:
NA
C2:
PF0062617=Gelsolin=PD(64.1=79.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCTGCAGGAGGAAAACCAAGT
R:
ACTCCACTTGAAGGGATCCCA
Band lengths:
334-777
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