RnoINT0164002 @ rn6
Intron Retention
Gene
ENSRNOG00000025581 | Vwa2
Description
von Willebrand factor A domain containing 2 [Source:RGD Symbol;Acc:1562000]
Coordinates
chr1:277700734-277702801:+
Coord C1 exon
chr1:277700734-277700808
Coord A exon
chr1:277700809-277702667
Coord C2 exon
chr1:277702668-277702801
Length
1859 bp
Sequences
Splice sites
5' ss Seq
AATGTAAGT
5' ss Score
8.62
3' ss Seq
CCATCTGCTCCTGTCTCCAGTGA
3' ss Score
8.78
Exon sequences
Seq C1 exon
TTTCCCTGTCCAGCTCTCTTCAGGAAGTGCATGTGAGCCGGGAGACCACGGGAAAGATCGCAGTGGCCAGCAAAT
Seq A exon
GTAAGTTCAGCTTACCTCCTCCAAACACTCGACTGTTGAGACCTCTGTGCAGCGGACCCAGGGAGGCCATGCTTCCCTGGGAGTTTCCACTGCTGCCTCTCATGGCGTGGCCTTCCCAGTCATTCCCCACACTCATTCCTTCCTGTAAGTCCTGCTGAGCAACTCTCCTTGGTTAAAATAGTGATAACCACAGGCAACTACAAAAAAAAAAAAAAAAAAAAAAAAAAACCAGCCTTGTTGCTACGGAACATTAAGTTCAATTTATATTGCATTCATTTATTTGTGTGTGTGTGTGTGTGTGCTCGCACTCGCACTTGTGTGCATGAGTGCATATGGAGGTCAAAGGGCACTGGAGGGATGTGTTCTTTCCATGTGGGTCCTTAGGTCAGCACGGCAGCCCCTTTGTTGCTAAATTTCTCAGCCAACCTCAGGGTTTTCTGTCACCTGTCATCTACCAAACCACACATATTTCCTGCCATGTTTCTCCTTCTACCTGCCCAAGCCAAACTAATGCTTTCCCAGAAGCCCAACCTAGTTCCTCTTCTCTCCACTCTCCTAGGTAAGAGGGGAGTTCAGGATTCACCACCAGCCCCTACCACTCCCTGGTATTTTGTTATCGGAAAGTTACTGGCTCACACTGTGTCTATTTCCTTCTCTGTCACTTGGCAGTGAAAACACAAATCTCAGGCTGAGGGTGTGGCTTAGAGGGTGTGACAGGATACTATGATCCTAGCACTGGGCAGTGCTCACAGAATCCTGTAGACTTACTGGTCAACCTGTGAGCTCCAAAAATCACAGAATCCTGTAGGCTTACTGGTCAACCTGCGAGCTCCGAAAGCAGTGAGAGACACTGTGTCAAAAAACTGAAGGAGAATACAATAGAAGAACGTACCTGTCATCAGCCTCTGTGCTACACAGCTGTGTACATGGGTGTGCACACCTGCACATCTGAACACAGACAAACACATACACAAAAATACAGACCTTCTTAGGATTAGAGTTGAGAGCTAGATGATAGACTTTCTCCTTGAGTTGGTAGAAAATATTGTACCAAGGGAGGTGATGGTGGATTCTGTCAGTGTGTGAACTAGAAATGTTAATCATGTACCTGAAGTGGTGAATTGTATGGTGTAGGAAGTCTCAAGAAGACATTCAAAGAAATAAAGTCCTTGGGGAGCTAGAAGGATTATCTGGATGGGTGTGTCAGATACATCTTGTGCTGGTTTCCCGTCAGCACGACACAAGCCATAGTCATTTGGGGGGGGTGGGGGCCCGACTGAGAAAATGCCTCTGTAAGATCTGGCTATAGGCAAGCCTGTAGGGTTTTTTCCTAATCAGTGACTTTAGATTTTAGATTGTGGGTGTACCATCTCTGGCCTGCTTGTCCTGTGTTGTACAAGAAAGCAGGCTGAACAAGCCAGTAAGCAGCACCACACACACGTACCCTCGTAGCCTCCTCATCAGCTCCTGCCTCCAGGTTCCTGCTCTGCTTAAGTCCCTGCCCTCAGTGATGGACTGTGGTGTGGAAGTGTAAGCCAAATAGATCCTTTCCTCCTCGTGTTGCTTTTGGTCATGGTGTTTTGTTACAGTGGTAAAAATCTCTGACTCAGATGCACCTCGGGCAGTGCTGAAGTAGAAGAAAGGTGTGGCCTCTGCTGCTACTTGAATTCTTGCTCAGCCTTGCACAGTGGGGTACCCAATTGAGATAGTAACCCTCAAAGGCAGGGGCCATGGCGAGCCCAAGACCCTCTTCGCAGGACTCATGTACTCTGTCTGAAGAGCTCACAAGCAGGCCCTATCTCAGTCTTTATAACGAGAAAGAACCTAGTTCAATTACCTCCATCTGCTCCTGTCTCCAG
Seq C2 exon
TGATATGGTGCTCAGCCGCGGTCGACATCCTGTTCCTGTTAGATGGCTCTCACAGCATTGGGAAAGGGAGCTTCGAGAGGTCCAAGCGCTTTGCCACTGCTCTCTGCGATGCCCTGGACATCAGTCCTGGCAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000025581:ENSRNOT00000051834:3
Average complexity
IR
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(21.1=80.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCCCTGTCCAGCTCTCTTCAG
R:
CCTGCCAGGACTGATGTC
Band lengths:
207-2066
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]