DreINT0109069 @ danRer10
Intron Retention
Gene
ENSDARG00000088750 | otogl
Description
otogelin-like [Source:ZFIN;Acc:ZDB-GENE-050419-93]
Coordinates
chr18:6060057-6060445:+
Coord C1 exon
chr18:6060057-6060231
Coord A exon
chr18:6060232-6060337
Coord C2 exon
chr18:6060338-6060445
Length
106 bp
Sequences
Splice sites
5' ss Seq
CGGGTAATC
5' ss Score
4.59
3' ss Seq
TTCTTCTTTAATTGGTGCAGGCT
3' ss Score
6.18
Exon sequences
Seq C1 exon
AGCCCGAGCGAGGAGACTGTCCCAATGGCAAAGTGTACTACAGCTGTCGGGGTCAGAGCGGCCGCGGACCCTCAGGTGTCGGTTTGGCCTGTGAACTGACCTGTCGAAACCTGATGCTGAACCTGACCTGCCCTCCCATGACCCCGTGTGTACCAGGATGTGGATGTCCAGCCGG
Seq A exon
GTAATCGTGTTCATCTTTGCTTGAGGAACAAATGTTTTGGGAAGTATGCTTGTCTGTTGACACCAGAGCCTGTAACGTTACACCGTTTCTTCTTTAATTGGTGCAG
Seq C2 exon
GCTAGTGGTTCATAATGGAGAGTGTTATTACCCAGAGAACTGCCCCTGTGCGTGGCTCGGTCTAGAGTATCTCCCTGGGGAGACAGTGGACACGCCGTGCTACCGATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000088750:ENSDART00000092804:20
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=PU(77.6=88.1)
A:
NA
C2:
PF0182612=TIL=PD(20.9=37.8)
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:
GGAGACTGTCCCAATGGCAAA
R:
CCCAGGGAGATACTCTAGACCG
Band lengths:
243-349
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]