RnoINT0162867 @ rn6
Intron Retention
Gene
ENSRNOG00000015408 | Vil1
Description
villin 1 [Source:RGD Symbol;Acc:1307048]
Coordinates
chr9:81699831-81701432:+
Coord C1 exon
chr9:81699831-81699941
Coord A exon
chr9:81699942-81701229
Coord C2 exon
chr9:81701230-81701432
Length
1288 bp
Sequences
Splice sites
5' ss Seq
CGGGTAACC
5' ss Score
5.26
3' ss Seq
CATCTGTGGCATCTCTGCAGGGC
3' ss Score
8.33
Exon sequences
Seq C1 exon
GTGGAAATGTCCTGGAAGAGTTTCAACAGAGGGGATGTCTTCCTGCTGGACCTTGGGAAGCTTATCATCCAGTGGAATGGGCCAGAGAGTAACCGCATGGAGAGACTTCGG
Seq A exon
GTAACCCTGACAGGGCGCCTCATTTCTGCCATAGGCATGCCCCATCTTCTTCAGTAGCCTCAGCATCACCTGTCCTAGTCAGCCTCAACCCCCTACCCCCGCAACCACCCTCACCCCACTTGTGGGGACAGGAGTAGACCTAAGTCTTCATGTACATGGTGGAATATGTCTCCGTAGTGTGGCAGGCCCCATTCTCAGCCTTGGGTATCCAAGTGGATGAGGTGGGCAGAGCTTTGCCCTTGCTCTACCCAGAAGCTGGCCATCTGGTCAAAGAGCCATAAGGGAAAGGGAGAATCAGAGGAATGATTACTGGAGAAGTTCGGTACTGGGCACACAGGGAGGCTTTGGGGATCAGATGGAGGTGAGGCCAAGTCCCTGGGGCAGGAAGGTGGCTGGTATTGTCCATTGGCTCAGTAGGCGGAAGCTGTGCAGGGAACAGGTCTCATAGGCAGGATGTGTGGCCAGCAGATTGTGAAAAGGAGTTAGGTCTTCTACCCACCGAGTAGACGCTTATCTGATTTCTGAGTAGAAACGGGATGGGGAGGGGACTGGGTGGGATCCTGGCTTCACTATGTGTGGGACAAAGATGCAAAACCGGATGCCTGAGAACAGTAAGGAACAGCGGAGGCCCAGTTCCTGAGACTGGGAAGACCTCAAGGGAAGAACGGAGGGCACTTTTGACTGTCTGAAGAGGGTCGGTCCTACGAGATGAGAGCGAGGCTAGAGACAGCAACACACGGGTGTTGCTAACCACAAGAGCCCAGGGACTCCAAAGGGCCCACGAAGGGAGGCTAAGGAAAAAAGTGAACCACAGTGCGTGTACACATGAAAGCTGGCACCCATGGGACTATGCATGCAGATACACGCTTGTGTGAGCTTTCATGGAACTGAACTATGTGTGCACGTGATTATTTGTGTATATAGGTATGCTCATGTGAACTTGTGTGTGTACTGTGAGCATGTGTACCTCGGGCAGACTAAGTAGAGTACTATGATCTTTGAGGCTCAGCTCTCGTACAAAACCATGAAGGGAAACCATAAATTCCCAACAATGTCACAACTACAGGCCCAGCAAGACCAGAGCAAACACCCCTGCACCCCCAACCCCCCCAATGAGGAGACCTATTTTCCCATAGGTTCCAACTGTTGCTTCCCACACCTGAAAGGCCTTGTCTCCACCCCTTATAGATCTGCAGGATGGGGCGGAGTTTGTCGAGTGGAGTTCAGGGTGGGGAACATTACTACCCTGTCTGCCAACCTTCATGCGTCATCTGTGGCATCTCTGCAG
Seq C2 exon
GGCATGACCTTGGCCAAAGAGATCCGAGACCAGGAGCGGGGTGGACGCACCTACGTAGGCGTGGTGGATGGGGAGAATGAAGGGGACTCCCCACAGCTGATGGCAATTATGAACCACGTGCTGGGCCCACGCAAGGAACTAAAGGCTGCAATTTCTGACTCAGTGGTGGAGCCGGCCGCTAAGGCTGCACTCAAGCTGTACCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000015408:ENSRNOT00000021432:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.081 A=NA C2=0.221
Domain overlap (PFAM):
C1:
PF0062617=Gelsolin=FE(48.0=100)
A:
NA
C2:
PF0062617=Gelsolin=PD(40.0=44.1)
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:
GTGGAAATGTCCTGGAAGAGT
R:
GTACAGCTTGAGTGCAGCCTT
Band lengths:
312-1600
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]