DreINT0109058 @ danRer10
Intron Retention
Gene
ENSDARG00000088750 | otogl
Description
otogelin-like [Source:ZFIN;Acc:ZDB-GENE-050419-93]
Coordinates
chr18:6041980-6042262:+
Coord C1 exon
chr18:6041980-6042088
Coord A exon
chr18:6042089-6042215
Coord C2 exon
chr18:6042216-6042262
Length
127 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGG
5' ss Score
8.3
3' ss Seq
TAATATGTATTACATTTCAGTGT
3' ss Score
6.49
Exon sequences
Seq C1 exon
GTTTGATCTTGCAGAATGGCACCTGTATAGCTGTGTCTCAGTGCCCCTGTGTGTACCACGGTACAGCATATCCTCTGGGTCATGTATTGGAGCAGGGCTGCACTGTCTG
Seq A exon
GTGAGGAACATTTTATATTAACACTCTTGCACTTCTAATATATATTTGTTTATTATTTAGCTCCTTAGCTGATAATAGAAAACTCTGCTGTGTGTACAACATCCATCTAATATGTATTACATTTCAG
Seq C2 exon
TGTCTGTATGGGAGGACTGTGGAATTGCACTGAAAACAACTGCACTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000088750:ENSDART00000092804:10
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:
PF0182612=TIL=PD(25.9=37.8)
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:
TTGATCTTGCAGAATGGCACCT
R:
CAGTGCAGTTGTTTTCAGTGCA
Band lengths:
154-281
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]