MmuINT0172945 @ mm10
Intron Retention
Gene
ENSMUSG00000038775 | Vill
Description
villin-like [Source:MGI Symbol;Acc:MGI:1201781]
Coordinates
chr9:119068312-119070068:+
Coord C1 exon
chr9:119068312-119068456
Coord A exon
chr9:119068457-119069882
Coord C2 exon
chr9:119069883-119070068
Length
1426 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAAG
5' ss Score
8.27
3' ss Seq
AGGCCTCCTCTGTGGCCCAGATC
3' ss Score
4.04
Exon sequences
Seq C1 exon
GCTTCCCGAGGAGGTGTGGAGCATCCAGCCCCGACTGTTCGAGTGCTCCAGTCACGCAGGCTGCCTGGTCCTCACGGAAGTGCTGTTCTTTGGCCAAGAGGACTTGGACAAGTATGACATCATGTTACTAGACACCTGTCAGGAG
Seq A exon
GTAAAGTGGCCACTCCTGTTTGGCTGGGCTGGGAACTCAGGGTGTGCATCAGTGTGGTTGGGCGTGAAGGAGAGTCTAGCCTGTGACTGATTGTTGCCGTGGACTCAGAGTCCGGGTGTAATAGAGTCAGGTTGTATGTGGTTGTGACCGTGCGTGTTGTGTGTAATGCTGTGTGCCCCATGATGCTGTGTGTGACTGAGGCTCTGCCTAGCTACACGGCACCGCAGGATGTGGAGGGTCTGACTGGGTAGCACAGGGGACTCTTTGAACCTGCACATTTGGGTAGCTACGGCTGTGGGTAACCAGACCATGCAAGCAGTTGTGCAGTCCAGTATAGTCCAGTACGAACAAGAACTGGCCACACCAGTTGTAACTGTGTGTGCACGTGTCTGTGTGAGAGGAAAAGGGGGAACATGGGGTTGGTTGTTGGTGTGACAGAGCAACTGCATTTGTGAGTCTGTAGAATTCTGTGAGCCCATGAGATGGTATACACGACCAGCCAGAAATTGTTACGTGACAGGTAACAAGATGTGACGTGTCTATGTGCACACATTAGATGACAGTAACTGGCTGTGGTCAGCTATCTGGCTCTATGGCAACGGGCAAAGTGTCTCTGCAGCTGCGATACCGTGCGCATGTCATTGTGTGTGGTAGCGTGTGCGTGTGTATGTGAGTGTGTGCGTGGTCGTGTGTGACTGTGTATGCTACTGTCTCTGTTGGGATAAGGTTGAGCCCTGAGGACATCTCAGAGGAAACCCAAGCCCAGACTCCACCCCCTCTCCCCCACTGCACAGCCCACCACATTGCCCAGTCAGCCCCTCTCTGACCAATCATCTCCCCTGACTCCACCCCCTTAGCCCAGAATGGCCTCAAACTAACTATGTAACCCTGAACTTCTGATCTGAGTCCATCTCCCAAGTGCTGGGAATACAGACCTAGCCCACCCCCTCCTGTTTACGTGGTACTTGGGGTCTAGGGCTTTGCTAAGCAAGCACTTGAACTGAATAGTAGCCCCCACCCCTTTTTGAGGCAGAGAATCACACTGTGCAGGCTAACCTCAAACTCTCTCTGTAGCCAAGGATTGCCTTGAACTGACTCTCCTGCCTCCACTTTGCCCGTGCCATCTGTCATTAAAGACATGTGCCACAATACCTGGCTTAGGGACTGAAGCCTGTGTTCTTTCTACCGTTGAGTCTTTAGTACCAAGCCCACCCTAGTGATTCATACCTATTTATAGATTAGATACATGCAGGCATGCATGCATGCCTGTGACCTCAAGTGTTCATGGGTGTACGGACACCGTAACGTGTTGGGTTCTTGGCCATGCATATGCATGCGGGCTTCTGAAGCCATCTGAGTTGGGAGGAGGTGGCTGTCACAAGCAGTCCCTCCACCTGTCCAAGCCCAGGCCTCCTCTGTGGCCCAG
Seq C2 exon
ATCTTCCTGTGGCTTGGGGAAGCTGCAGGTGAATGGAAGAAAGAAGCAGTGGCCTGGGGCCTTGAGTACCTGAGGACTCACCCAGCAGAGAGGAGCCTGGCCACACCCATCTTTGTGGTCAAGCAAGGCCATGAGCCAGCCACCTTTACCGGGTGGTTTGTCACCTGGGACCCTTACAAGTGGATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000038775:ENSMUST00000051386:16
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.010 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0062617=Gelsolin=PU(32.9=51.0)
A:
NA
C2:
PF0062617=Gelsolin=PD(64.5=79.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTTCCCGAGGAGGTGTGGAG
R:
TCCACTTGTAAGGGTCCCAGG
Band lengths:
328-1754
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