MmuINT0172925 @ mm10
Intron Retention
Gene
ENSMUSG00000026175 | Vil1
Description
villin 1 [Source:MGI Symbol;Acc:MGI:98930]
Coordinates
chr1:74430617-74432431:+
Coord C1 exon
chr1:74430617-74430685
Coord A exon
chr1:74430686-74432290
Coord C2 exon
chr1:74432291-74432431
Length
1605 bp
Sequences
Splice sites
5' ss Seq
GACGTAAGT
5' ss Score
10.93
3' ss Seq
ATGGTTGTCTTCTTTCCTAGGAG
3' ss Score
9.32
Exon sequences
Seq C1 exon
AACACCAAATCCTATGATGACCTTAAGGCAGAGCTGGGAAACTCTGGGGACTGGAGCCAGATTGCTGAC
Seq A exon
GTAAGTACAGTGGCACGGCTGGCTCTGAATGGCCTGAAGGTGGTCCTGTCGGTGGGAGCTGACATGTTAGGAGACATCTGCATCTTATATGCCACCCCAATCTCTTCCCTTTTCTTGTGGAAGTCCTTGCTGTGTAGCATACAATGCCATTTCTTTTTCTTTTTTTGTTTTTTAAAGGCAGGGTTTCTCTGTGTAGCCCTGGCTGTCCTGGAACTCACTCCGTAGACCAAGCTGGCCTCAAACTCAGAAATCCACCTGCCTCTGCCTCCCAAGTGCTGGGATTAAAGGCGTGTGCCACCACTGCCCAGCTGACTCCATTTCATAGTGAAACAGATTTTTTAGCACCCATGAGGCAGCATATTAAAATGCAGATTTTTTTTCTCGGCATAGTGGTGCGTGACTATAATTGCAGAACCGAGGAGGCAGCTGAGGAGGCAGAGGCAGGATGACCAGGTAGAGACACTGAGACTCAAAACAAACAAACAAACAAACAAATCAAAGCTAGAACCAAAGTTAGCAGATGTCAAGGCTCCATTTGAGTTGGCTCTTAGGAACATGCGTGGTTTTGTTTTTTCATTGTGTGTGCTCTTTCGTGTGTGGAGGTCAGAGGCTGATATGGAATGTCTTCCCTGATTGGGCAGGGTATTTTGCAAATCCAGAGCCTTCCATTTCAGCTGGTCTAGTGGCTTGCCTGCCTCTGGGATTCCTGTCTTTGCTTCCGGGGTGTGCTATTACAGGTGGACTCGGCATGTTTTTTTGTGTGACGGGGATCTAAACTTCAGGCCTAACGCTCACACAGCAAGTATCTATCCTTTGAGCCGTCTCCTCAGCTCCAGGTTCTGCATGCTTTAAATGAAAGGCTTAGGTGGGCTGATGAACTTAAGCCATGGCCTGCTTGCCCTGGGGGAAATGGTGCCGTCTCTAAGCACAGTCATGGTGAGGAATAGTCCTCCAGGTAGGATGATTGTGACTCCTTCAGTCTCTCTGCTACTTATTGGAGATATGTTTAGCATGTAGGCTTGGGATATGAGGCTGTGAATTCAAAATTGTCCTTTGAGGTTGTCACAGGCCCGCAGAAGAAAGACAGGGCTAGCTCTTCAGAAATGCAATCAGAACCTGAGAGCAACTTCTCAAGCAGGTGAGGGTAGCCCTCCAATCGCAGCCTGAAAACACTATGGTGCTTAGCCCTTCCAGGTGGACAGTGCAGTATTTAAAAAGAAAAGCTAGTTTGAGGCCGAGTGATGAATTTATAGATGACAGTTTTACAACAGCTATAAGAGAAAGGGTCACAGATGTCTTAGATAAATTAGATGTCACATTCCAGGGGAAGCCATGGCGATGTTAGTCATTGATTAAACAGCCATCTTTTCCCAACTGACTTAGGCCAGTTGCAGGCCACTAGGCTATTAGCTTTTGGGTCCAACCCAGGAGATGGTATTCATTTTACTGTTTGTTCTACAGTGTGTGTTTGTGTGTGTAAGAGGGGAAGGGGAGAACCAGGAGGGCCCTCCTACAGAAGGTACCATAGATCACAGCGCACAGCAGCACAGGATGTTGCCACACCTCAGGGCTGCTGAAGTAACCCATGGTTGTCTTCTTTCCTAG
Seq C2 exon
GAGGTTATGAGCCCGAAAGTGGACGTTTTCACTGCCAATACCAGTCTGAGTTCTGGGCCCCTGCCCACCTTCCCCCTGGAGCAGCTGGTAAACAAGTCTGTAGAGGATCTCCCTGAGGGTGTGGACCCCAGCAGGAAGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026175:ENSMUST00000027366:18
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.033 A=NA C2=0.388
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
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:
ACCAAATCCTATGATGACCTTAAGGC
R:
CTCCTTCCTGCTGGGGTCC
Band lengths:
207-1812
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