DreINT0109082 @ danRer10
Intron Retention
Gene
ENSDARG00000088750 | otogl
Description
otogelin-like [Source:ZFIN;Acc:ZDB-GENE-050419-93]
Coordinates
chr18:6075787-6077450:+
Coord C1 exon
chr18:6075787-6075866
Coord A exon
chr18:6075867-6076740
Coord C2 exon
chr18:6076741-6077450
Length
874 bp
Sequences
Splice sites
5' ss Seq
ATTGTACGT
5' ss Score
5.63
3' ss Seq
TTGTATTATTATTGTCACAGGTG
3' ss Score
7.47
Exon sequences
Seq C1 exon
GGTTGAGGGCTGTTTTCCACGATGTCCTAAGACCATGTTGCTGGATGAAGTGACCAGGCGGTGTGTGTACAAAGAAGATT
Seq A exon
GTACGTATGAAACCATAGTTTGCATCCAGTTCATTTAAATATTTGATAATTATTTAATTAAATTAAATTTTTAATTTAATTTTTAATCATTCTATTTTATTTTTACTCACTATCCATTTTTATTTTATTTTATTTTACAGTACGATAGTATTCATTGTAATTGTAATATTTAATAAAGATGATTATTTTATTTTATTTACTACTGTAAACCACCAATTTTTATTTTATTGTATTTTATTTTACAGTACAATAGTATTCATTGTAATTGTAATATTTAGTAAACGTAATGATTATTTTATTTTATTTTAAATAAATTTTATTTTATTTTATTTACTTCTGTGAACCACCAATTTTCATTTTCATTTTATTTTATTTTACAGTACGATAGTATTCATTGTAATTGTAATATTTACAATATAACAATAATGATGATTGTAATTGAATTTAATTTTTAATTTAATTTAATTTTATTTTATTTTACTATAGTATTTATTGTAATTATAATATTTAGTAGACATAATAATGGTTATTTAATTTAATTTTAATTAATTAAATTTATGTATTAATTTAATTTAATTTATTTTATTTTATTTTATTTTATTTCCTCCTGTGAACCTTCTGTTTTACAGTCCGTTCGTATTCAATGTAATTGTTATAATATTAATTGTAATATTTTTATTTTATTTTATTTTACAGTACAATAGTATTCACTGTTATATTATTTAGTAAACATAATAATGATTAATTTAATTTAATTTATTTTTAGATGTTATTTATTGTAATTGTAATATTTAGTAAACATAATATTTGGTTAATATTTAGAATTTCTATAATATTAATTAAAACATTCATTATTGTATTATTATTGTCACAG
Seq C2 exon
GTGTGATGCTTTCTCCAACACCAACTCCTTACATGTTTGTAACCCGATCAAATCGCACCACGGCGGCTCCAACCACAGCACCTACAACCACAACTTCAACCACAACGACTCCTTCCACCACGACAGCAACACCAAGCACAGCTCCAACCACAACTTCCAGTACTACAATCATAACTACACCTTCAGAAGCAGCTGTTTTAATAGTCAGCCCGACTACAACCACATTACCCCCAACCACAGTGTCGTCAACAACAGAAACAACCACTTCAACAGAAACGCCCACAACGTCCTCTCCAACCACAGAGCCTCCTCTAATCACCACTGCCCCGCCCACCACATCAGCCACACCCACTACAGCTAAACCCACCACACCTATTACTACAACTTTACCATCATCTACATCCACCACAGAAATGACAACCACATCTGAAGCCACAACCAAACCTGAAACAACCTCTCCGACGACCACAGTCCAGCCAATTACAACCACCACTGTCATCACAACAGAGAGCACAACTTTAGAAAGTACGACCACAGTGATCACCACAGAGTCCACATCTGTCTCGCCCACAACCGAGGAGCCTTCAACTACAACGGCAGCGGTGCCGACAACTTCTGAGATCATAATTCCTTCTCCATCTCCTTCTCCTGAGACAGCAGGAATAACTACAGTTCTTCCTCCATTTCTGCTGCCCACAGGACCCTGCACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000088750:ENSDART00000092804:32
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=0.903
Domain overlap (PFAM):
C1:
PF0182612=TIL=FE(47.3=100)
A:
NA
C2:
PF0182612=TIL=PD(0.1=0.0)
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:
GGCTGTTTTCCACGATGTCCT
R:
TGTGGGCGTTTCTGTTGAAGT
Band lengths:
357-1231
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]