DreINT0109092 @ danRer10
Intron Retention
Gene
ENSDARG00000088750 | otogl
Description
otogelin-like [Source:ZFIN;Acc:ZDB-GENE-050419-93]
Coordinates
chr18:6094742-6096391:+
Coord C1 exon
chr18:6094742-6094927
Coord A exon
chr18:6094928-6096178
Coord C2 exon
chr18:6096179-6096391
Length
1251 bp
Sequences
Splice sites
5' ss Seq
GCGGTGAGA
5' ss Score
7.4
3' ss Seq
ATGATGTCCTGTTATTTCAGTGT
3' ss Score
7
Exon sequences
Seq C1 exon
CACTCAAATGTCCTCCTGGTAAAGAATACAAACCCTGTGTGAACACATGCAAGACGCGAACATGCCAGAACCGCGATTACTATGAAGAAAGCACCTGCTCTTCTATCAGAGAGGAGTGTGTTTGTAAAAGCGGCACCATCCTTCACCGAGCAGATTCTGCTTTCTGTGTCACCGAGGACCAGTGCG
Seq A exon
GTGAGATTACAGCATATTTAATAATACAATACATTGTGATAATGAACATGCATGGTACTGTCATCATATAGGCACTTCAAAAACCTGCGAATAACTGTTGATTATTTAATGTTTTAGACTGCCTTATATTTAATTGCTTGCAGAGTTAATAGTCTTTTTATATTTTACTCAAAAACATTTTGCATGGTAATTTCCGCATGCAAAACCACATGCGCCACACGCCAAACCATAAGTATTATTTATTGAAAATTTAAATTTATACGCAGTGCAAAACATATGCACCTTCTTATCTGCACTCACTTCTGCAGATCTATGTGCCCTCCAGAAACATGCGTTCTGGGAATGAACGTCGCCTCGTGGTTCCATCCCAAAGAGGGAAAAAATCACTTTCGCGAACGCTCACGCTCAATCTGCCCAGTTGGTGGAATGAACTCCCTAACTGCATCAGAACAGCAGAGTCACTCGCTATTTTCAAGAAACGACTAAAAACTCAACTATTTAGTCTCCACTTCACTTCCTAATCTGCAATTGCCTCTTTGAATATCACACTAACTGTACAAAAAAAAAAAAAAAAAAAAAAACTACTAATACTTCCCTTCTTAGACTTTACAGACCTGAAACTTGCCTTTAGTACTTGCTCTTAGTTGTGTAAATTGCTTCCTTGTCCTCATTTGTAAGTCGCTTTGGATAAAAGCGTCTGCTAAATGACTAAATGTAAAAATGTAAATGTAAACATATGCTGGAATAGTTGGCAGTTCATTCCACTGTGACTAAGTAAGGGACTAAGCTGAAGTAAAATGAATGAATATTTCGTACATTTTTATTACAGTTTTCAACATTTTTTCAACACATTTATCTATATAGAAACCTTCTTTATGTATTATTTATTTAAAAGTTTACACTTATATTTACTTTTTGCATGCCTATTTGGTTAAATAAAGATTGCATATTTTTAATTTTACAATAAAATTATTTTAACCTACTTTAATTTTACAATAAACTTTACTGACATTCAGTGTGGACAACAAAGTATGTCATTGTTCAGAGAACCTGTTTCTTACTCTGACAATAAACACTTTGAATCTTGAGTCTTAAATGCACCATGTTTTGAAGCAGTAACATCTAAACATCTGAATTTTGTAAACCATAGTCATGATACTTCAATTCCGGCAACCACAGCTGCAGTTTTTTATTTACTGTTAAATTAGCAGATTTTTTGTTGCGTTGTATGATGATGTCCTGTTATTTCAG
Seq C2 exon
TGTGTACGGATAACGACGGTGCACCACGGGCTCCAGGTGAGGTGTGGAACGGCTCTCTGCGCGGCTGCTGTCTCTTCCGGTGTCTGGAAAACGGTAGTGTGGTTCCTGTAGAGCCCGAGTGCAGTTATGAACCGGCTCCGCTGTGTGAGAGAGAGGGAGAATACGCCGTGGATGTCCTGGAGGAAGGAGTCTGCTGTCCCAAGAAGATCTGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000088750:ENSDART00000092804:41
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:
PF087426=C8=PD(0.1=0.0),PF0182612=TIL=WD(100=95.2)
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:
GAACACATGCAAGACGCGAAC
R:
GACAGCAGACTCCTTCCTCCA
Band lengths:
344-1595
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]