RnoINT0053399 @ rn6
Intron Retention
Gene
ENSRNOG00000000436 | Egfl8
Description
EGF-like-domain, multiple 8 [Source:RGD Symbol;Acc:1549706]
Coordinates
chr20:4379290-4379587:-
Coord C1 exon
chr20:4379478-4379587
Coord A exon
chr20:4379386-4379477
Coord C2 exon
chr20:4379290-4379385
Length
92 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGG
5' ss Score
9.16
3' ss Seq
TCCTCTCACATGCACCCCAGCCA
3' ss Score
4.51
Exon sequences
Seq C1 exon
GACCACGTACCGCGTGGCCTGGAGGGAAGTGAGGCGGGAGGTACAGCAGACACATGTGGTGTGCTGCCAGGGCTGGAAGAAGCCACACCCAGGAGCTCTCACCTGTGAAG
Seq A exon
GTGAGGCTGGGACTTTTGGCTGTGGCACTTCCCTCCTGCTGGGGAGCCAGTCCGTTGTCTGGGTCTTAACTCTCCTCTCACATGCACCCCAG
Seq C2 exon
CCATCTGCTCTAAGCCTTGTCTTAATGGAGGTGTGTGCGCCGGACCGGACCAGTGCGAGTGTGCCTCAGGCTGGGCAGGGAAGCACTGCCACGTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000000436:ENSRNOT00000000499:3
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:
PF075468=EMI=PD(40.8=76.3),PF079748=EGF_2=PU(6.2=5.3)
A:
NA
C2:
PF079748=EGF_2=PD(90.6=87.9),PF0764510=EGF_CA=PU(0.1=0.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGGAGGTACAGCAGACACATG
R:
CGTGGCAGTGCTTCCCTG
Band lengths:
168-260
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]