RnoINT0163607 @ rn6
Intron Retention
Gene
ENSRNOG00000012001 | Vps37a
Description
VPS37A, ESCRT-I subunit [Source:RGD Symbol;Acc:1560016]
Coordinates
chr16:54875236-54876129:-
Coord C1 exon
chr16:54876015-54876129
Coord A exon
chr16:54875337-54876014
Coord C2 exon
chr16:54875236-54875336
Length
678 bp
Sequences
Splice sites
5' ss Seq
AATGTACGT
5' ss Score
6.58
3' ss Seq
ATGTATTACTGTTATTTCAGTTT
3' ss Score
4.87
Exon sequences
Seq C1 exon
ATTACTTCCTCCACAGTTTCCTCAGGAAAAACCAGTGATTAGTGTTTATCCACCAATAAGACATCACTTAATGGATAGTCAAGGATTATATGTTACCTCTCCATTAGTAAGCAAT
Seq A exon
GTACGTATGTGCTATAGTTTATTTCAGAGTAATATAACATATTTATTGTATTATTCTTTTTTTTTGTATTATTCTTGAAATACGAAATGTACAGACATTTTCATTTTGAAATTAGTAATTTTAAATTTCCCTGGAGAATACTTAATACTGTGACTTGAAGTGTTTGGATACAATGTGGTTGGATAATGTGACAAGGTAAAACTTAATATATCCTAAGTATTTACCTTTGAATAATCAAATTATCACAAAGTGTGGGAGTATTTTAGCCTCATTACTGACTGAATAGACTTTTAACCTGATATTTATAGTACTGTTCTATCAGAAAGTGTTGTAAGTCATGTTGACACAGTGCTCTTGTTTTTCTGTTTATTCTTTATTTTATGTGTATGAGTGTTGTTGTGCCTTACATGTATGTGCGCCATATGCATGCAGGGCCCACAGAGGCCAGAGGTCACGTAGAACTGCACTTAAAGCTGTGAGCTGCCATGAAGATGCCTGGAACTGAACCTGGGGCCTCTGCAAAGACATGAAGTCCTCCACTGAGCCATCACTTCAGTCCCTTTTCTACTTATTCTTGCCTGCAGACATTGGTTACGATTGAGAGTGAAATTTAGTCACATGAAATTTTGTTACCGCTTTTGAGAGGGTTTCTATCATTATGTATTACTGTTATTTCAG
Seq C2 exon
TTTACAATGCACTCAGATCTTGGAAAAATTATTCAAAGTCTTTTGGATGAGTTCTGGAAGAATCCTCCAGTTTTAGCTCCTACTTCAACAACATTTCCATA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000012001:ENSRNOT00000016321:3
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:
PF057438=UEV=FE(45.8=100)
A:
NA
C2:
PF057438=UEV=PD(27.7=67.6)
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:
ATTACTTCCTCCACAGTTTCCTCA
R:
TGGAAATGTTGTTGAAGTAGGAGCT
Band lengths:
214-892
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]