BtaINT0106297 @ bosTau6
Intron Retention
Gene
ENSBTAG00000011336 | OTOGL
Description
otogelin-like [Source:HGNC Symbol;Acc:HGNC:26901]
Coordinates
chr5:9846209-9847232:+
Coord C1 exon
chr5:9846209-9846374
Coord A exon
chr5:9846375-9847157
Coord C2 exon
chr5:9847158-9847232
Length
783 bp
Sequences
Splice sites
5' ss Seq
CATGTACGT
5' ss Score
6.32
3' ss Seq
TTTTTTTTTTCCCCTTACAGATT
3' ss Score
13.44
Exon sequences
Seq C1 exon
GGGTGGTGTGTCAGAAAGGCATGATGTACCATCACTGCTCTTCCTTCTGCCGCCGCTCCTGCGTCTCCCTCTCCGCCCCAGAGCAGTGCAACGATGACTGTGCGGAAGGCTGCAACTGTCCTGAAGGCAAATACTATGAAGACACGCTGAGCTTTTGTGTTCCCAT
Seq A exon
GTACGTCCCAGAAATGTGTTGACAACATCCAGTTTTTAACCTCTTGTCTCCCTTACAGAATAAAGGGGCTGCCATGCCTGTTTCTTTTCTCCCCGTCTTTTTTTAAAAAAATCTAATCGACTCAGAACCATAAGTTTTTTTCCACTATTAAATGTCAGTTTTTCCGTAAAATAAGTGGACATATATGCAAGGATCTGCTTGTGAGTTGTTTCTTTAATATTTCTTAATATCCTTACTCTTATGTATTTATTTGTTAACCCTGTACGTACTCACAAATCGCTGCAGAAAGAGCTAAGGAATCTGATGAGTCACCCCGAAGTTCATTCCCACGTGCTTTTGCCGTATCAATAATAATAGCAAGGTTTATGTTTCTCTGTCATGTGGCAAATTGTAGTAGCAGGATTGTAATGTCTCTCAGCATTCAGAAATTTCTCAAATCTCACATGACATAAAGACTTTGTTGTCTACATAGAGTTACATGATAGATTGGTTGTATTTCTCTCAAGTGCCTCCAGGGACATTTTTGTGAGAGAGACAACATAGTCTGTACTGTGACGAAAACAATACAGAGTATGAGTTTTGGGAAACAAAATCTAAAGCTGCACAAGATTTCACATTTGTTTAACAGAATTGCATGGAATTTTGTGCAGTAATGTTATTGCTAGACTGTGCCTTAAAAGTACCAATACAGCATGTGGTCTGCTTCAATTTCAGTGTTGTTTTTTTTTTTCTTAAATATATCCTATTTTGTTAACTTAATCTTTTTTTTTTTTCCCCTTACAG
Seq C2 exon
ATTTCACTGCCGGTGTCATTACAGAGGCAGTATTTACCAACCCGGAGAGCTCATCCCAACACCCTCAGGCTTATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000011336:ENSBTAT00000048210:20
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:
PF087426=C8=PD(0.1=0.0),PF0182612=TIL=PU(92.9=92.9)
A:
NA
C2:
PF0182612=TIL=PD(5.4=11.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGTGGTGTGTCAGAAAGGCAT
R:
TAAGCCTGAGGGTGTTGGGAT
Band lengths:
238-1021
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]