RnoINT0003698 @ rn6
Intron Retention
Gene
ENSRNOG00000024536 | AABR07032338.1
Description
NA
Coordinates
chr18:61762097-61762359:-
Coord C1 exon
chr18:61762220-61762359
Coord A exon
chr18:61762133-61762219
Coord C2 exon
chr18:61762097-61762132
Length
87 bp
Sequences
Splice sites
5' ss Seq
GTGGTCAGT
5' ss Score
4.85
3' ss Seq
TAAATGTTTGTGTCTTCTAGGGT
3' ss Score
9.77
Exon sequences
Seq C1 exon
GCTCACCAGGACCCAAGGGGAGCCCTGGATTCCCCGGTATGCCAGGCCCTCCTGGACAACCAGGCCCACGGGGCTCAATGGGACCTATGGGACCATCCCCTGACCTGTCTCATATTAAGCAAGGCCGGAGGGGCCCTGTG
Seq A exon
GTCAGTGTCTTCTCTGAGATCCATGTAATATTGGGGGGGGGGGTGTTTGTCCCTTTTTTTCCCCAGTTAAATGTTTGTGTCTTCTAG
Seq C2 exon
GGTCCACCAGGAGCACCAGGAAGACATGGCTTGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000024536:ENSRNOT00000034069:5
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:
PF0139113=Collagen=PD(69.4=72.3),PF0139113=Collagen=PU(20.5=17.0)
A:
NA
C2:
PF0139113=Collagen=FE(28.2=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCTCACCAGGACCCAAGGG
R:
CATGTCTTCCTGGTGCTCCTG
Band lengths:
168-255
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]