DreINT0108369 @ danRer10
Intron Retention
Gene
ENSDARG00000102825 | olfm2b
Description
olfactomedin 2b [Source:ZFIN;Acc:ZDB-GENE-040426-2402]
Coordinates
chr1:58539032-58539485:-
Coord C1 exon
chr1:58539266-58539485
Coord A exon
chr1:58539139-58539265
Coord C2 exon
chr1:58539032-58539138
Length
127 bp
Sequences
Splice sites
5' ss Seq
TGGGTATTA
5' ss Score
1.91
3' ss Seq
GTCCGCATGTGTGTGTTCAGGTT
3' ss Score
8.09
Exon sequences
Seq C1 exon
GAGCTGCGCTGGAGTGTGTCTCAGTGTCGCCCCCTGCGGGTGCTGCTGACTCGAGTGCGTGCGGATGTGGCTCAGCTGGACTCTGTGCGTGACGAGCTGCAGGGGATCAGTGTGTCGCTGTCACTGCTGCAGGAACGCTTCACACTCCAGCACTATCAGCAGCTGCAGCAGCGCATCTCCATCCTGCAGCAACACCTGCACAGCTGCTCCAGCCACCTGG
Seq A exon
GTATTACACACACACACACATGCACTGACACCTGCCACACAAATGTATGCCCATTTTGGGAAATCACATTAAAAACGACATGTGAATATTCATGTGTGTGTGTGTGTGTCCGCATGTGTGTGTTCAG
Seq C2 exon
GTTGTGGTCAGCTGATCAGCATCAGTGCTCCGCTCACAGTCAGATCTTCAGGCTCTCGCTTCGGGTCGTGGATGATGGAGACTTCCATTGAAAGTTCGGACAATCGC
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000102825:ENSDART00000168919:4
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:
PF123083=Noelin-1=PD(0.1=0.0),PF127952=MscS_porin=PD(47.3=93.2)
A:
NA
C2:
PF0219111=OLF=PU(12.8=88.9)
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:
GATGTGGCTCAGCTGGACTCT
R:
GAAGTCTCCATCATCCACGACC
Band lengths:
242-369
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]