RnoINT0163998 @ rn6
Intron Retention
Gene
ENSRNOG00000025581 | Vwa2
Description
von Willebrand factor A domain containing 2 [Source:RGD Symbol;Acc:1562000]
Coordinates
chr1:277724401-277727752:+
Coord C1 exon
chr1:277724401-277724973
Coord A exon
chr1:277724974-277727200
Coord C2 exon
chr1:277727201-277727752
Length
2227 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGA
5' ss Score
10.77
3' ss Seq
CTATTCTGCTTCTCCTCCAGGCT
3' ss Score
10.13
Exon sequences
Seq C1 exon
CCCCGAAGCTGAGCCTGGAATGCAGGATCGATGTCCTCTTCCTGCTGGACAGTTCTGCAGGCACCACTCCGGAGGGCTTCCGTCAGGCCAAGGCCTTTGTGAAGCGCTTTGTGCAGGCCGTGCTGAGTGAGGACTCCCGAGCCCGTGTTGGGGTAGCCAGTTACAGCAGGGATCTAATGGTGGCGGTGCCTGTTGGGGAGTACCAGCATGTGCCAGACCTGGTCAGGATCCTTGACAGCATTCCCTTCAGCGGTGGCCCAACTCTGACCGGGAGTGCCTTGCTGCAGGTGACAGAGCATGGCTTTGGGAGTGCCAGCCGGACAGGACAGGACAGGCCACGCAGAGTAGTGGTTCTGCTCACTGAATCACACGCCCAAGATGAGGTGGCTGGGCCAGCAGATCATGCGAGGGCCCGGGAGCTGCTACTCCTGGGCATGGGAAATGAGCTCATGCGGGCAGAGCTGGAGAGGATCACGGGTAGCCGGAAGCATGTGATCATCCACACAGACCCTCGGGACATGTTCAGCCAAATCCCAGAGCTGCAGAGGAGGCTATGTAGCCAACCACGGCCAG
Seq A exon
GTAAGAGTGCAGCCTAACCTGGGGCTGGCCGGTCAGCAAACAGGTCCTTCTGTCTGTCTGTCTTCTTGGCCCCATAGCCATCCTTTTCTGCAGTGGGACCTAGAATCAGGGCCTGGGTGTAGAATTCTGTGGGGGCTTCTTGTGAGGACTGGATAAGTCATGTCCGAGCGTGCTTCTGACTATAGATGCTGTTACTAATTATACTTGATCATTGTTAGTCTTAAGGAGTTCTGAGTCTTTTACGCCTGCTTGAGAACAGCAGTTTTCTTGACCTCTTCGGTGGTTAACTAGAAGTGTGTCCATGGAACACACATGCACACATGCACACATGCATGTGCCGCACACTTGAACACAACCAAAGTGAACATTTTATAAGATGATGCCTACTCCATCTGCCTGGCGTGTGCTGTAACACTCCCTTTCATTCTGTCTCCTTACCAATGAGGCTGATCTTGTGAGCAGTAGTCAGTGGAAAAATGGGAGCCGTGGGAGTAAGCAGGGCCATGCAAAAAGCCTTGTGGTACCCGAGATGGCAGAGCTGGAACACATTCCTAAGAGGGTACTTCGGTGCTTCCCTGGGGAGCTGAATGGAAGAAACCTCACATGGGACTTAGCCTCCAAGGCCGGTTACTGTTCCCAGAGGCTTCGGGTCATCATGTCCCTTGAGTCCTGTCCTCTAGGCCAGTCTCCTATGGCAAATGATTTTGTTTGTGTTGTGTGTGTGTGTGTGTGTGTGTGTGTGTACACATACATACATACATATATATTTGTTTGTATATATAGACATAGACATAGACATATATTTGTTTGTATATATAGACATAGACATAGACATATATTTGTTTGTATATATAGACATAGACATAGACATATATTTGTTTGTATATATAGACATAGACATAGACATATATTTGTTTGTGTATACATACGCACATATACATATATACATATATATTTGTTATATATACATATATATTTGTGTATACACACACATATATATACATATATATATATATATATATATATATATATATTGAAAGGCATGCCTATTGCAGAGGGTTCCCATATCCATCCAACTCCTGGCATTAGAATAGGTCATTGTTGCATTTAACAGAACATGATAGATACATTACTACTTAGCTTTTACCTGATATCTTGTTCCCCCATATCCATCCAACTCCTGGCATTAGAATAGGTCATTGTTGCATTTAACAGAACATGATAGATACATTACTACTTAGCTTTTACCTGATATCTTGTTCCCAAAGCCAGAAATGGCCCTCACAGGACAGTTAGTGGTAGAAATGGCCCTCACAGGACAGTTAGTGGATCTGTCTCCTCAGGGGTTGTGGCAGGTTCTCTATTTTCCTTGTGTCTGGTGTGGTTTCTAAAAGCTAACATTATCAGACCACCAGACCCTTTGACTATATATTTAAACCATCCCAGTGGCTCTCTGTGCATCTGAAAGAAACCCGAGCCCCTTCCACCAGCTTCTGAGAACTTCCTGCCTGGCTGCTGCTGTCTTGGCAGCTCCCACACAGGAAGATGCTTCCCAGCTTAGGGGCACCCTGCCTGCCCGTCAGCTTCAGCTCTCTCCTACTCCAGAGCTAGCAGAACCATCACCTCCACAGGGATTCTCCAAGCACCTTCGCAGTCACTTCTTGTCTTGCTGTCCCTCTATCCCCTCCCCCTTCTCTCCCTGCTTTCCCACTGTGTTGCTGACTCTATTCTATATTTGTGGTCATTTCCTACCCGTAAGTCATAAATCACCACTCCGTAGATGGCGGGCATCAGTCTGCTTGATGCCCTGTGCACAGTGGGCAGGCACTGCACGATGCACCTGCTGTGGTCAGGGCCCCCCAAATCCCATATGCTGGACACTTCCAAAGACCAAAGGTGAGTGACCCGGGCCAGCAGGAAGCTTGGCTTCATCATCTCCTGGCCTCAGTGCTGAGGCCCAAGATCACCAGTTAAGCCAGCAAGGAAAAAAAAAAAAAAAGATGGGGGAGGGAGGCGGAGGTCAAGCAGCTCCCACCGGCTCACGTTAGAATGTATACAGTTTCAAACTTAAAAAATGCATTCCCTTTGATGGAGAGTACAGCACGGCCAGCCCTAATGGCTATTCTTAGCAGGAGGCTGGGAATGTCATCAGGGTGGCCATTTGCACAGAACAGCCATGCTGTACCAGCCAGATCTAGACAAGGGACCTATTCTGCTTCTCCTCCAG
Seq C2 exon
GCTGCCAGGCACAGTCACTAGACCTGGTCTTCCTGTTGGATGCCTCTGCCTCAGTGGGAGGTGAGAACTTTGCTCAAATGCAGAGCTTCATCAGGAAATGCACCCTCCGCTTTGATGTGAATCCTGACGTGACACAGGTTGGCCTGGTGGTATACGGTAACCAGGTGCAGACCGCTTTCGGACTTGACACCCATCCCACCCGTGCTTCTGTGCTGCGGGCCATGAGCCAGGCCCCCTACCTAGGGGGTGTGGGCTCTGCTGGCACAGCCTTGCTGCACATTGAGGACAAGGTGATGACGGTCCAGAGGGGAGCCCGCCCCGGTGTCCCCAAGGCTGTGGTGATGCTCACAGGTGGCAGTGGGGCAGAAGATGCAGCTGTCCCTGCCCAGAAGCTGAGAGACAATGGCATCTCAGTCTTGGTAATGAGTGTGGGAGCTGTCCTCAAGGAGGCAGTGAGGAGGCTTGCTGGTCCACGGGACTACCTGATCCATGTGGCAGCTTACACAGACCTGCGGTACCATCAGGACACGCTCATCGAGTGGCTATGCAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000025581:ENSRNOT00000051834:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.099 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0009223=VWA=WD(100=89.1)
A:
NA
C2:
PF0009223=VWA=WD(100=93.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]