MmuINT0174338 @ mm10
Intron Retention
Gene
ENSMUSG00000025082 | Vwa2
Description
von Willebrand factor A domain containing 2 [Source:MGI Symbol;Acc:MGI:2684334]
Coordinates
chr19:56906390-56909383:+
Coord C1 exon
chr19:56906390-56906962
Coord A exon
chr19:56906963-56908831
Coord C2 exon
chr19:56908832-56909383
Length
1869 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAAA
5' ss Score
8.59
3' ss Seq
TATTTTGCTTGCTCCTCCAGGCT
3' ss Score
9.21
Exon sequences
Seq C1 exon
CCCCGAAGCTGAGCCTGGAATGCAGAATCGATGTCCTCTTCCTGCTGGACAGTTCTGCAGGCACCACATTGGGGGGCTTCCGGAGGGCCAAGGCCTTTGTCAAGCGCTTTGTGCAGGCCGTGCTGAGGGAGGACTCCCGAGCCCGCGTTGGGATAGCCAGTTATGGCAGGAATCTAATGGTGGCGGTGCCCGTCGGGGAGTACCAGCATGTGCCGGACCTGATCAGGAGCCTTGACAGCATTCCCTTCAGCGGTGGCCCGACCCTAACCGGGAGTGCCTTGCTCCAGGTGGCAGAGCACGGCTTTGGGAGTGCCAGCAGGACTGGTCAGGACAGGCCACGCAGAGTAGTAGTTCTGCTCACTGAATCACGCTCCCAGGATGAGGTGTCTGGGCCAGCAGCTCACGCAAGGGCTCGGGAGCTACTCCTCCTGGGCGTGGGCAGTGAGATCCTGCAGGCGGAGCTGGTGAAGATCACCGGTAGCCCGAAGCATGTGATGGTCCACACAGACCCTCAGGACCTGTTCAGCCAAATCCCAGAGCTGCAGAGGAGGCTATGCAGCCAGCCACGGCCAG
Seq A exon
GTAAAACTCTGCAGCCTAACCTAGGGCTGGCTTGTCAGTAGACAGGTCCGTCTGTCTGTCTTCTTGGCACCACCAGCCATTCTTTCCTTCAGTGCCTGTGCTGGGAACTAGGATCGGGGCCTGAGTGTAGAACTCTGTGGGGACTTCTTGTGAGGACCAGATAAGACAAGCCTAAGCAAGTACACTCAGCATGTCTAAGCGTGCACCTGATTATAGGTACTGTTACTAATCACACTTGATCATTGTTATTAGTCTTAAGGAGTTCTGAGTCAGAGACGTGTATTCTTAGAACACACACATGTACACATGCACACACACACTTGTTGCTGCACACTCGAACACAACCAAAGCGAACATGCTGTGATACCTTCTCTACTTCTCTGCTCATTCTGTTTCCTTTCCTATGAGGCTGAGCTTGTGAGCAGCACTCAGTGGGGAAATGGTAGCCCTGGGACTAAGCAGGGCCATGCAGCGGCTGGGCTAGTACCCGAGATGTCAGAGCTGGAACACATCGGTAAGAGGGCACTTCAGTGCTTCCCTGGGGAGCTAAGTGGAAGAGCCTCATGTGGGACTTAGCATCCCCAAACCGCGTTACTGGCGATGGTCCCCAGAGGTGAGAGTCCCCCTTCTGTAAAATGGTGATGAGGCTTGTCATGCCCCTTGTATCCTGTCCTCTAGGCCAGTCTCCTATGGCAGATATATATATATAACGGACTTGCCAATTGCAGAGAGTTCCATTATGTATCCATCCATTAGGATAGGTCATTGTTGCATTTAACAAACCAAAATCGATACATTGTTACTTAGTACAGTCTACCTTTGCTCAGATTTCCTTAGCTTTTACTTGATGTCTTCCTGTTCCCAACGCCAGAAATTGCCCTCACAGGGGAGTTAGCAGGCCTGTCTCCCCAGGGGGTTGTGGCAGGTTCTCTATTTTCCTTGTGTCCAGTGTGGTTTTTAAAAGCTAACATTATCAGACCACCAGACCCTTTGACTCCGTATTTAAACCATCCCAGTGGCTCTCCATGTGGCTGAAAGAAACCCGAGCCCCTTCCACCAGCTTCTGAGTACTTCCTGTCTGGCTGCTGCTCTCGCACACACTGGAAGACTGAGGAAGCTGCCTCCCTGCTAAGAAGCATCCTGCCTGCCAGTTAGCTTCACCTCTCTCCTCCCCAGGGTTCCCTGAGCACCTTCCTAGTCACATCTTGTCTTGCTGTCCCTTTAGCCCCTTCTTTCCCATGGTGTTGCTGGCTCTATTCCACATTTGTGTTCATTTCCTACCCATATGTCCTAAATCACCACTCCATAGATGGCAGGTATCAGCCTATTTGATATAATAGCAGAGCCCTGTGCACAGTGGGCAGGCACTGCGTGATGTAAGGAGGCAGGCGAAAGTACAGCCGCACCTGCTGCTGTTAGGGCCTTCAAAATCCCATATGCTGGGTCCTTCTTTCAAAGATCAAAGGTGAGTGACCTGGCTTCGCATGGCTTCAGAGCTGCGGCCCAAGGTCACCATTTCTAAGCCAGCAAGGATTTAAAAAAAAGATGAGGGAGGGAGGCTGAGGTCAAGCAGCTCCCACTGACACGTTAGAATTTATAGTTTCAAGCTTAGAAACTACATTCCCTTCGATTGGGACTACAGCACGGCCACCCCCTAGTGGCCATTCTCAGCAGGAAGCTGGGAATGTCATCAGGGCAGCCACTTGTATTCATGTCTATATTCTAAGGAAGGATGAAGTGTGATTGTAAGGAGGGTGGATGCTACATGGGCAGTCAGCACACTGGCTGGCCTGGACTCTGTCCAGCCCAGAACAGCCCTGCTGTACCAGCCAGATCTAGACAAGGGACCTATTTTGCTTGCTCCTCCAG
Seq C2 exon
GCTGCCAGGCACAGTCACTGGACCTGGTCTTCCTGTTGGATGCCTCTGCCTCTGTGGGACGTGAGAACTTTGCCCAAATGCAGAGCTTCATCAGGAAATGCACCCTCCGGTTTGATGTGAATCCTGATGTGACACAGGTTGGCCTGGTGGTATATGGCAGCCGGGTGCAGACTGCCTTCGGGCTAGACACCCATCCCACCCGGGCTGCCGTGTTGCGGGCCATGAGCCAGGCTCCCTACCTAGGGGGTGTGGGTTCTGCTGGTACAGCCTTGCTGCACATTGAGGACAAGGTGATGACGGTCCAGAGGGGTGCCCGCCCCGGTGTCCCCAAGGCCGTGGTGATGCTCACAGGCGGGAGTGGGGCAGAAGATGCAGCTGTCCCTGCCCAGAAGCTGAGAGGCAATGGCATCTCAGTCTTGGTTATGAGCGTGGGAGCCGTCCTCAGGGAGGCAGTACGGAGGCTTGCCGGTCCACGCGACTCCCTGATCCATGTGGCAGCTTACACAGACCTTCCGTACCATCAGGACATGCTCATCGAGTGGCTATGTAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000025082:ENSMUST00000026068:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.073 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0009223=VWA=WD(100=89.6)
A:
NA
C2:
PF0009223=VWA=WD(100=93.5)
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:
CAAATCCCAGAGCTGCAGAGG
R:
ACCGTCATCACCTTGTCCTCA
Band lengths:
347-2216
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