RnoINT0162861 @ rn6
Intron Retention
Gene
ENSRNOG00000015408 | Vil1
Description
villin 1 [Source:RGD Symbol;Acc:1307048]
Coordinates
chr9:81710332-81712213:+
Coord C1 exon
chr9:81710332-81710400
Coord A exon
chr9:81710401-81712072
Coord C2 exon
chr9:81712073-81712213
Length
1672 bp
Sequences
Splice sites
5' ss Seq
GATGTAAGT
5' ss Score
9.11
3' ss Seq
GTGGTTGCCTTCTTCCCTAGGAG
3' ss Score
9.78
Exon sequences
Seq C1 exon
AACACCAAATCTTATGATGACCTCAAGGCCGAGTTGGGAAACTCTGGGGACTGGAGCCAGATTGCTGAT
Seq A exon
GTAAGTACAGTGGCACGGGTGGCTCTGAATGGCCCAAAGGTGGTCCTATTCGTGGGAGCTGACATGTTAGAAGACATCAGCGTCTTATACCCTACTTCAGTCTCCTCCCTTTTCTTGTGGAAGTCCTTGCTGTGTAATATCCTATAACTCCATGTCATAGTGAAACGGAGTCCCCATTTTTAGCACCTATGAGGCAGCATATTGAAATGCTGAAATTTTTTCTTGAAATAGACTAGGTGTGTGACTATAATTGCAGAACTGAGAAGACAGAGGCAGGAGGAGTATGTAGAAATACCTAGACTCAAACAAACAAGTCAAAGCCAGAAATAAAATTAGCAGATGTCAAGGCTCCATTTTGTGTTGGCTGTTAGGAGCATGCGTGGTTTCACTTGTTCACTGTGTGTGCTCACTCGTATGTGGAGGCTGATGTGGGGTATCTTCCCTGATTGCTCTCCACCTTATGCACTGAGGCAGGGTATTTTTGCAAGTCCAGAGCCTTCCAATTCAGTGGGTCTAGTCTGACTTGCTCTGGATTCCCTGTCTTTGCTTCTGAAGTGTGCTATTATAGGTGGACTGCCACTCAGCCTGGCTTTGTGTGTGTGACAGGGATCTAAACTTCAGTCCTAATGTTTGCACAGCAGGTATCTATCCCTTGAGCTGTCTCCTCAACTCCAGGTTCTGCATGCTTTAAATGAAAAGCTTAGGTGGTCTGAGGAACGTAAGCCATGGCCTGTTTGCCCCTGGGGAACCCGTGATGTCTCTAGGCACCGTCGTTAGGAACACTTTTCCAGGCAGAATGATCGTCACTCCGTCAGTCTCTCTGTTACTCACTAAAGATATGTTTAGTATTATGTAGACTTGGGATATGAGGCTGTGAACTCAAAACCGTCCTTTGAGAAGGTTACAGGCCTACAGAAGAAACAAGACAGGGCTAGCTCTTCAGAAACACAATCAGAACCCAAGAGCAACTTCTGCATGTGAGGGTAATCCTCAATCACAGGCTGAAAACACTATGGTGCTTAGTCTTTCTGGTGGATAGGGCAGTGTTTAAAAAGGAAAGCTAGTTTGAGGCCAAGTGATAAATTAATAGATGACAGTTTTACAACAGCTATGAGAGAAAGGATCACAAATGTCGTAGATAAATTAGATGTCACATTCCAGGGGAAGCCATGGAGAAGTTAGTCATTGATCCAGTAGTCATCTTTTCCCAACTGGCTTAGGTTAGATGCAGGCTACTAGGCTATATAAAACATTAGCTTTTGGGGTTGGGGATTTAGCTCAGTGGTAGAGTGCTTGCCTAGCAAGCACAAGGCCCTGGGCTCGGTCCCCAGCTCCGAAAAAACAAAACAAAACAAAACAAAACAAAAAAACAAACCAAACCAAAACAACAACAAAAAAAACCATTAGCTTTTGGGTCCAACCTAGGAAGATGTGTTTGTTTTACTGAGTGGGTGGGTTCGTGCATGCCGTCCTCCCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTGTGTGTGTGTGTGTGTAAGTGTGTAAGTGTGTAAGAGGGCAAGGGGAGAACCAGGATGGACCTCCTGAAGATGGTACCATAGAACAAAGATCACAGAAGCACAGGATGTAGTCACATGCTGCTGAAGTAACCTGTGGTTGCCTTCTTCCCTAG
Seq C2 exon
GAGGTTATGAGCCCCAAAGTGGATGTTTTCACTGCCAATACCAGCTTCAGTTCTGGGCCCTTGCCCATCTATCCCCTGGAGCAGCTGGTAAACAAGCCTGTGGAGGAGCTCCCTGAGGGTGTGGACCCCACCAGGAAGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000015408:ENSRNOT00000021432:18
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.043 A=NA C2=0.298
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCAAATCTTATGATGACCTCAAGGC
R:
CTCCTTCCTGGTGGGGTCC
Band lengths:
206-1878
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]