DreINT0022381 @ danRer10
Intron Retention
Gene
ENSDARG00000001909 | VILL
Description
villin-like [Source:HGNC Symbol;Acc:HGNC:30906]
Coordinates
chr24:20274280-20276773:-
Coord C1 exon
chr24:20276549-20276773
Coord A exon
chr24:20274654-20276548
Coord C2 exon
chr24:20274280-20274653
Length
1895 bp
Sequences
Splice sites
5' ss Seq
GAGGTGGGT
5' ss Score
7.07
3' ss Seq
TTCATCTTTTATTTCTTCAGGAG
3' ss Score
9.89
Exon sequences
Seq C1 exon
AGTCTCAACAACACAGACTTGAATAAGAAGCCAGGAGGAGGTGTGGGAAACTACAGCGCTCCTGGGGGACCGGGGAGTATACGCTCCCACAATCAGAGGATGTCCAGTGTACAGTTCGGAGATGGGTCTCAAAACAGAGCAAAGCCTTCTGGGATGCAAAATTCAGAGCAGCTTGTTAAAATGCCAAATCAGCTGCCTCAAGGACTGGATCCTGAAAAACGAGAG
Seq A exon
GTGGGTTTAGGCACCTACAAAACTTTAGGTTTTAGGGTAGTTTTGAACAATTTTGGCTACATTTTGGTCAGACATCACAACACATGGAAGGCCATATTCTGCCACTGGATTAAAAAAAGATATGTAAAAGGATGTGTAACGGCGATTGCATCATCTTATGATTAACTTTTTTTTATTTTAATTAATTCAGAGTTTGTATAGTAAACTAGTAAATATCTTGTGATTTCTCTAAATATCTTGGTTTAGACTTAATTTCTTACACTTTACAAAGAGTTTACATCATCTGGAGTTGTTACCTCAAAAATGTTGACTTTTTTAGTATTACAACTTTATTATTTATTATCTGGGCTGTCACTCAATTGAGAATTTACAGTTAGTGTTTCATTTTTATTATATCTCACAATTCTGAGTTTTTATGTTAATGTTGAAATGTATTTTTGCTCAGTTCTGAGTTTCTTGATTAGAATTACAACTTTATTTCTTTTAACTGCACATGTCTTGTAAATTTTCCTCATGAATTCTGAGTTTAAATCTCAAAATTGAGATTTATTTTCTTAAAATTGCTACTTTTTCTCTTGTAACTTGTAGCTCAAGTTCATGAGCAGTTTTTTCATGCAGAATTCTGAGTTCATTTCTCAAAATCGAGATTCATTTACTCTTCTTTATTTCTTGTAACTTTATGAGCTCTCTCACAATTCTGACTTTTCTCGCTTTTCGTTTCTGAGTTTATGACTCAAGATTTCATCTTATGAAATCTTATGAATGTATAGTCAGTAAATATGAATCAAGATTTGTTTACTTAAATGTTTTACTTTATTTCTTGTGGCTGCAAGTTTATGAGCTGTCTCACAATTTTGACCCTTTACTCTGAATTCTGAGTTAATTTCTCAAAATCAGAATTTATTTTCTAAAAATGTTTTTGTTTCCGAGCTGTAGGCAATTCTCAATTTCTCAAATCTTATTATTCTGAGTTTATATATCGCAGTCAAGATCTATTTTCTCAAAATTATAATTGTATTTTTTGTTTATTATGTGTGATCTCAAAAACTCTTGAGGTCATTGCTCAATATCGAGATTTCTTTTCTCAAAATTATGACTTTATTTCTTGTAACTGCAAGTTATAAGCTTTGTCGCAATTCTGACCATTTTCTCAGAATTCTGAGTTTATATCTCAAGATGCCTCAAGATCCAGATTTATTTGCTCAAATTTCTGACTGTATTTCTCGTAACTGCAAGTTTATGAGTGGTCTTGCAATTCTCAGTTTTTTTTCTTAGTATTATAAATTTTTTTCTCAAAATCTGAATTTATTTGCTCAAAATGATGTCATTATTTGTCATAACCGCAAGTTTACAAGCGTACGCAATTCTGAAAGTTTACATCTCGCAATCGAAATTTACTTTCTCAAAATTATGACTTCATTTGTAGTAACTTTATTTCTTGTAACTGCAAGTTTATGAGTGATCTCATGTAAATTTAGACATTTTCTCAAAACTGTGAGTTCATATGTCAGAATCGAGATTTGTTTTCTCAAAATTACTTTATTTCTTATAGCGGCAAGTTTATGAGCTGTTTTGCAATTATGACCTATTTCTCTGAATTCTGAGTTCATTTCTCAAAATCAGAATTTTTTTTCTAAAACTTTATTTATTGTATAGACTGACTTTATTTTTCTGAATTCTGAGAAGTTTACATCTCGCAATGGTAATTTATTTCATAATTACAGTAAAACTTTAATTCTTAGTTCTGGAATTTTACGTGCAATTCTTGCAGTTCACACATTATATTTAACTTTTTTTGTACTCCATTGTAAAAACAAGCATCCATACTTAACTAATATAGAGCTAAGTGTATAATTTAGTAAAAGATCTCCTTTTTTCATCTTTTATTTCTTCAG
Seq C2 exon
GAGTATTTGTCTGATGCTGAATTTGAAAATCTCCTGGGCTGCACTCGTGCCAATTTCCAGCGTTTGCCTAAATGGCGTCAAAACGACCTGAAAAAGAAGGCAGGACTATTTTGATTCGCTTTTCACCAACAAGATGAAGACCTTCATACCTGATTATGCACTTAATGGATATTTTAAGATGGCAAGCTATCACTATTATACATTTATTTATTCATTAATGCATTTAAACATTTCGCGGCTAACATTTAAAAGTGCAACCCAATAGAAATGCCATGTAAATATATTTTACAAAAGACGAATTTGTGTTTACCCAGTCACTTGAAACACATTGTGAATCCTGTTTAGTACTAATAAAAACACACTGTATGCCAATA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000001909:ENSDART00000048940:20
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=0.324
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0220914=VHP=WD(100=94.7)
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:
AACAGAGCAAAGCCTTCTGGG
R:
TGCACTTTTAAATGTTAGCCGCG
Band lengths:
349-2244
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]