RnoINT0040112 @ rn6
Intron Retention
Gene
ENSRNOG00000020525 | Col5a3
Description
collagen type V alpha 3 chain [Source:RGD Symbol;Acc:70922]
Coordinates
chr8:21793225-21793502:-
Coord C1 exon
chr8:21793449-21793502
Coord A exon
chr8:21793279-21793448
Coord C2 exon
chr8:21793225-21793278
Length
170 bp
Sequences
Splice sites
5' ss Seq
CCGGTGAGT
5' ss Score
10.9
3' ss Seq
CCACTGTCTCTCCTCCCTAGGGT
3' ss Score
12.4
Exon sequences
Seq C1 exon
GGTCCCACAGGACTCCCTGGAGATCTAGGACCCCCAGGAGACCCTGGAGTTCCG
Seq A exon
GTGAGTGTAAACTCCCTGAAGCCCAGCCCTAAATGTATCAGTGTATCTCCACTTAACCCCATCCCCCCCTAAACCTTGACAAGCTAAGAGGAGTGGATGACCCTCACTCCCCTCCAGCCCCATCTCTATCTCAGCAATCTCAAGATTCTCCCACTGTCTCTCCTCCCTAG
Seq C2 exon
GGTACGGATGGCATCCCAGGGGAGAAGGGGAATGCTGGTGATATTGGGGGACCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000020525:ENSRNOT00000027897:52
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=1.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
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:
AGGACTCCCTGGAGATCTAGGA
R:
GGTCCCCCAATATCACCAGCA
Band lengths:
99-269
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]