DreINT0109080 @ danRer10
Intron Retention
Gene
ENSDARG00000088750 | otogl
Description
otogelin-like [Source:ZFIN;Acc:ZDB-GENE-050419-93]
Coordinates
chr18:6074709-6075283:+
Coord C1 exon
chr18:6074709-6074987
Coord A exon
chr18:6074988-6075165
Coord C2 exon
chr18:6075166-6075283
Length
178 bp
Sequences
Splice sites
5' ss Seq
AAGGCAAGA
5' ss Score
2.81
3' ss Seq
CTTGTGTTCCTGTATTTTAGAGA
3' ss Score
9.84
Exon sequences
Seq C1 exon
GACTTCCTGTTGTCTCACTGGAGTCTGCAGAAAGGCCAAACTACTTCCTGTGTGTAACTGTGAACCGCGGGCTGCGACTGGAGCACTGGCAGCCTGGAGAAGAGTTCAGACGGCGGGCCACTTTCCTCCACCACCAGGGCCTGTGGCTTCCAGGAAGATCCTCCTTTGAGCTGCACAGTCAGAAGGGGGTTTTCATCACCCTTACACACACTCAGGCCCGAGCGCAGAATTATGATCACACACACGCCTTTAAAACCAGCAGCAGCTTCATCATCGAAG
Seq A exon
GCAAGAATTTGCTGCATTTATTTAGTAGTTGTACATCTTAGTAAAATGTTAATAGTGGTGTTATTCGATAAAAGGTGAATAGCTCTAAAAGTATTTTATGTCTTATTTGAGTTGTTTTCCATAATGTTGCTGCACTTTTTCTGAGTCTGTTTTCGGTGCTTGTGTTCCTGTATTTTAG
Seq C2 exon
AGAGCAGTTTTGTGATCCCATACCGCTTGATGTGCGAGTGGAAATATCACGCATGCTCCAGTCCGTGTGTGAAGACCTGCAGCGACCTCGATGCCACACGTTGCCATTTTCTACCTCC
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000088750:ENSDART00000092804:30
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:
PF052708=AbfB=FE(71.9=100)
A:
NA
C2:
PF0182612=TIL=PU(49.1=67.5)
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:
GCAGCCTGGAGAAGAGTTCAG
R:
TGCGTGATATTTCCACTCGCA
Band lengths:
244-422
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]