MmuINT0174342 @ mm9
Intron Retention
Gene
ENSMUSG00000025082 | Vwa2
Description
von Willebrand factor A domain containing 2 [Source:MGI Symbol;Acc:MGI:2684334]
Coordinates
chr19:56959513-56961501:+
Coord C1 exon
chr19:56959513-56959587
Coord A exon
chr19:56959588-56961367
Coord C2 exon
chr19:56961368-56961501
Length
1780 bp
Sequences
Splice sites
5' ss Seq
AATGTAAGT
5' ss Score
8.62
3' ss Seq
CCATCTGCTCCTGTCTCCAGTAA
3' ss Score
8.21
Exon sequences
Seq C1 exon
TGTCCCCGACCATCTCTCTTCAGGAAGTGCATGTGAACCGGGAGACCATGGGGAAGATCGCTGTGGCCAGCAAAT
Seq A exon
GTAAGTTTAGCTTACTCCTCCTCCAAACACGTGGCTATTCAGACCTCGGTGCCGCAGACCTGGAGAGGGACATGAGTGTATGCACAGTTATGAGTATGAGTGCATGTGGAGGTCAAAGGGCACTGGAGGAATGTCTTCTCTTTCTACCATGTGGGTCCTGGGATAGACCTTGGGTTAGCACAGCAGCCCCTTTGTCGATATATTTCTTAGCCTACCTCAGGGTTTTCTGTCACCTGACTGCCATCTACCAAGCCACACATGTTTCCTGCCATCTCTCTCCTTCTGCCTGCTCAAGCCAAACTAGCGCTTTCCCAGAAGCCCAACCTAGTCCCCTCCTAGGTGGGGGGACGCGGGATTCATTGCCAGCCCCAGGACTCCCTGATTCTTTGTTACTGGAAAGTTACTGGCTCACACTGTTTCTGCTTCCCTATCTGTCTAGTGGGAATGAAAACACAAATCTCAGGCTGAGGGTATGCCTCAGGGGGTGTAACAGGGTGACGTGGTCCCAGCACTCCCGAAGTGTTCGCAGAATCCTGTAGGCTTACGATCAACCCGTGAGCTCCAAAAGCAGAGAGACACTGTGTCAAAAACAGAAGGAAAATGCAATAGAAGCCCATGCCTGTCCTCAGCCTCTGCACGCATGCACAGGCGTGTGTGTGTGTGTATGCACACACACACACACACACACACACACACACACCCTTCTTTAGGGTTAGAGTTGCGAGCTAGATGACAGACTTTCTCCATGAGGTGGTGGAAAATGTTCTACCATCAAGGGTGGTGGTGGTGGATTCTGTCAGTGCATGCACTAGAAATGTTAATTATGTACCTTGAGTGGTGAGTCGTATGGTATAGGAAGTCTCAAGAAGACATTCAAAGAAATAAAATCCTTGGGGAGCTAAAAGGAATAAGTGGATGGGTGTGTCAGATACATCTTGTGCTGGTTTTGTGCCAGCTTGACACAAGCCATAGTCATACAGGGAGAGGAGGCGCCTCACCTGAGAAAATACCTCTGGAAGATCTGGCTACAGGCAAGCCTGTAGGATATTTTCCGAGTTAGTGATTTTGGAGGACTCAGCCCATTGTGAGTGTACTGTCTCTGGGATGGTGGTCCTGTGTTGTATAAGAAAGCAGGCTGAGCCGGGCATGATGGCGCATGCCTTTAATCCTAGTACTTGGGAGGCAGAGGCAGGCAGATTTCTGAGTTTGAGGCCAGCCTGGTCTACAAAGTGAGTTCCAGGACAGCCAGGACTATACAGAGAAACCCGGTCTCGAAAAAAAAAAAAAAAAAAAGAAAGAAAGAAAGAAAGAAAGCAGGCTGAACAAACTATCAGGAGCAAGCCGATAAGCAGTACCCCCTCCCGCATGGCCCCTGCATCAGCTCCTGCCTCCAGGTTCCTGCCCTGCTTGAGCTCCTGCCTTCAGTGGTAAACTGTGGTATGGAAGTGGAAGCCAAATAGACCCTCTCCTCCTCATGTTGCTTTTGTTCATGGTGTTTTGTTACAATAGTAAGAACTGTCTCAGACCCACCTCCAGTGGTGCTGAAGTAGAAGAAAGGTATGGCCCCGGCTGCTACGTGAACTCTTGCTCAGCCTCACCGAGCGTCAGGGTACCCAACTGAGATAGTGACCCTCAAAGGCTGGGACCATGACCAACCCAGAAGATCCTCTTCATAGGACTCATGTAATATGGCTGAAGAGCTCACAAGCAGGCCCCAACTCGTAGTCTTTATAACACAAAAGAACCTAGTTTAATTGTGTCCATCTGCTCCTGTCTCCAG
Seq C2 exon
TAATGTGGTGCTCAGCCGCGGTCGACATCCTGTTTCTGTTAGATGGCTCTCACAGCATCGGGAAGGGGAGCTTCGAGAGGTCCAAGCGCTTCGCCATCGCTGCCTGTGATGCCCTGGACATCAGCCCTGGCAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000025082-Vwa2:NM_172840:3
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0009223=VWA=PU(21.3=80.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTCCCCGACCATCTCTCTTCA
R:
CTGCCAGGGCTGATGTCCAG
Band lengths:
207-1987
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: