MmuINT0172946 @ mm9
Intron Retention
Gene
ENSMUSG00000038775 | Vill
Description
villin-like [Source:MGI Symbol;Acc:MGI:1201781]
Coordinates
chr9:118979741-118980643:+
Coord C1 exon
chr9:118979741-118979932
Coord A exon
chr9:118979933-118980251
Coord C2 exon
chr9:118980252-118980643
Length
319 bp
Sequences
Splice sites
5' ss Seq
GAGGTGGGT
5' ss Score
7.07
3' ss Seq
TCTTACCCTCCCACCCCTAGTTC
3' ss Score
9.24
Exon sequences
Seq C1 exon
GCCTTCAAGGGTTCCCAGGACAGTCCAGAGAATGAGCTGGGGCTGGACCTCAGGGTGGATGGCGCAAACCCCAGCATGAACCACACCAGCAGCTGCAGTGACTCAATGGTCAATGGGAGCCTGCCCCGGGAAAGGCTGATGCACCAGGCACTGGAGGACCTGCCACCGGGTGTGGACCCAGCCCGTAAGGAG
Seq A exon
GTGGGTACTAGACCTAACTGCACTGGGGAATCCCACAGGATCCTGTCCCATAATGCACTCTGAGCAGACCGGAGAAGTTTTGAATGAATGACACCTCCGGGATGGGACAGGAATCTGGGCTCCAGGAACTCCCATCCTTCCCCGCCCACTCCCACCCTCCTATCCCCATCCCTCCCCGCCCACTCTTACCCTTCCACCCCCATCCCTGCCCGCCCACTCCCACCCTCTCACCCCTATCCCTCCCACCCCCATTTCTCCCTGCCCACTGTACCCTCCCACCCCCATCCCTCTCCACCCACTCTTACCCTCCCACCCCTAG
Seq C2 exon
TTCTATCTCTCAGACTCTGATTTCCAAGACATCTTCGGGAAATCCAAGGAGGAGTTCTACAGCATGGCCAAGTGGAAGCAGCAGCAAGCGAAAAAGAAGCTGGGCTTCTTCTGATGTGGGGAACCCTGTGCCACATACCCTGAAATTCCTCCTGGGGTAACTCCCACTTCCTAATAAAAGCCAGTGGCTGGCATCGGGTGTGGCACGTGTGCCTGTGTGCCTTCGAGCCCCACCATCTGGTAGAGTCCCCTCCTCAGTGGCAGGGCCCTGTGGCACTCTGGGACACCGTCTTCCGTGGAAAGGATTCCTTCTGACTGCTTGCTTCCGGTCAGAAGAGGTATGCATGTAGATCTTGAGGGACTCCCTGGTGTCTTTGTAAAGAGACTAGAAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000038775-Vill:NM_011700:18
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.655 A=NA C2=0.014
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0220914=VHP=WD(100=94.7)
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:
TTCAAGGGTTCCCAGGACAGT
R:
CCCCAGGAGGAATTTCAGGGT
Band lengths:
346-665
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: