GgaINT0055886 @ galGal4
Intron Retention
Gene
ENSGALG00000006208 | OTOG
Description
otogelin [Source:HGNC Symbol;Acc:HGNC:8516]
Coordinates
chr5:11456747-11458035:+
Coord C1 exon
chr5:11456747-11456967
Coord A exon
chr5:11456968-11457896
Coord C2 exon
chr5:11457897-11458035
Length
929 bp
Sequences
Splice sites
5' ss Seq
TATGTATGT
5' ss Score
3.25
3' ss Seq
TTTTTTTTTTTCCTTTTTAGGTT
3' ss Score
14.81
Exon sequences
Seq C1 exon
GTTTTTGTGATGGAAGCTTGGAAAATGACCTGATGCTACCCAACAGGACAGTGTTAAGCAAAAATGATGCTCCATCAACATTTATAGACAGCTGGCAAGTGCCAGACACATTAAAGTATGTTGGAGAAGACAGGCATCAGGAAACTAATTGTTCAGTCACGGACTGCTCAGAGTGCTTAAGACTGGTGTTGAACCAGACCTTCAGCAGCTGTCATCCTTAT
Seq A exon
GTATGTTAACTATTTTGGAAGCTTACATTTTGGGAGAGATGCAGTTCTGATATACTTTTGCACACTTGATAATTTAATTAATGTGGAGCTACGTGTAACCACATCTGTGGAATGAGATATCTGCTTTTCTGTATCTACAGTTGATAAAAAGAATTGAAGAGTGCAACAGCTTGATAGGAGAGTTGTAATAAGCAGCTGACAATTTCAGAATTCCTAATAAGTCTCTGTTAGTTTTGGTAATAGCACCTAATTTATAAATCAGTCCCAGAAAATTCACTTGGACCAACAGGATGTACAGCAAAGTAAAATAAAGTAATTTTAGTATTTAGTTCTTACTTAAATATTCAGTAATTTAACAAATTCCAAATCACATTAGATAATGTAAGGGCCTGAATTCTCAAAGGCTGTAGAGAGCAGGAGCTCCAGCTTAGAGTGATGAGAAGGTGGAGCAGATCCTTTATAGCAAAATTAAAGCAAAAAACACAGTGTGAAAAAAAATATTTATTTGTGCTCATATGAGTATGTTTATCATTTCAACTTTTGTATATTGCTGAGTTTGATGAACAGGAGGCCAGAAATAGACAAAAGCATAGAGGAAGGAGGAACAAAGTGCAGTGAGTAATTATGTCTTCTGTTGGAAAATTTGTATAAGCTGTTGCTTTGGCATTTATAATACGTGAAACAGAAGAATACAGGGATGTCTCACTTTTTTTTCTCATGTTCAGAAAGCCTTACTTTTAAATACCAGTAGACTCTCTTTTTATAATACCAGTAGACCAGGAAAGGCCAGTGATCTCTTTTTTTTTTTACTGTCAGCCAAGAACTTTTTACTTTGTTGTGTGTAGCTGATATTTAAAAAGTTCAGTCTTTTCTTGCTACAAATCAGGGTCTCTATGAAAATACTTTTTTTTTTTTTTTTTCCTTTTTAG
Seq C2 exon
GTTCCACCTGAGGTATTCTGTGATATCTGGGTTCGGGATTCTGAGTACATTCAAAACCCATGCGTCTCACTAGCTGCCTACGTCGCAATGTGCAACAAATTCAATATCTGCATAGAATGGAGGAGCAATGATTACTGCC
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000006208:ENSGALT00000010023:46
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:
PF0009420=VWD=PD(10.3=21.6),PF087426=C8=PU(31.4=29.7)
A:
NA
C2:
PF087426=C8=FE(65.7=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Human
(hg19)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGCTTGGAAAATGACCTGATGCT
R:
GGCAGTAATCATTGCTCCTCCA
Band lengths:
346-1275
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]