GgaINT0055896 @ galGal4
Intron Retention
Gene
ENSGALG00000006208 | OTOG
Description
otogelin [Source:HGNC Symbol;Acc:HGNC:8516]
Coordinates
chr5:11467354-11468831:+
Coord C1 exon
chr5:11467354-11467532
Coord A exon
chr5:11467533-11468726
Coord C2 exon
chr5:11468727-11468831
Length
1194 bp
Sequences
Splice sites
5' ss Seq
GCTGTAAGA
5' ss Score
4.19
3' ss Seq
TAATCTGTTTATTTTGGCAGAAC
3' ss Score
5.79
Exon sequences
Seq C1 exon
TGAGAGACAAAGTTTGCTTGAGTAATGAGAGAGGCGTGCTGCTACCTGGACAGACAATTGTGGAACACAGTCTAGATGGCATTTGCCATATTTCTTACTGTACAAATGTGATTGATCCTTCCACTAAATACTACAGAATAAACACTTCTTCAGTAGCCTGTGCTGTCGAGTGCAAAGCT
Seq A exon
GTAAGAAATTTAGGATTTTAGACATGTATATTGTGACTGGTGATCTTAACTACTTTTTTTTTCCTTGAGTGGATTATAGTCATGAGAACAAGATGGAAAAAATAACTATAAGACCCCCTTCCCCACAGTGATTTACTACCTATCTTGGATAGAAGTTAATGGAATTCTCTCTCCCTTCACTATTTTCCCAGAATATAGATAATGTGTTTATGCTAACTTTGTTTCTGTATGTTGAATGTCATAAATTCATGCAGTGTTTTATTGTGTGATTTACTCTCTCCATAAATTACCCATTTTGATGGGTAATAAATACCATAAATGGATAAAATACCAGGTGGATTTGTCTGGCTGAGGCACAGAACGGATGCAATTAAGTCATTAATAACCGTACTATTGCTCCCTTTTAGAAAGACAGGTGGACCTTATTTGATCTTAATCTTCTTAAAACTGCAATTGTATTTAGGGAGAGTTGAGCACTAGCCTGATGGAGAGATGACTTGAAGGTTTGGATAGATTTATCCTCACTGAGAATACAGAAGGTGACAAGTTCTGTTACCATCTCATGTATTTGAACTAGCTACTGCAGAGATCCAATGCTCAGCAGGGTCCCATATAGAGCAGCAGTGGACTAAAGGACTGATAGCATACTGCCGCTGTGCATCTTTAGCTTTAGCTATGTTGTGCTGGCACAAATTGCCAGACTTAGAAGCCATTAGGTCAATAAGAACTGGGAAGAGAATAATAAGAAGAATTTCAAATGTGATGAAAACAGCTGCATTAAATATGGAAATGGTATCTTGGCTTTTTTTTTTTTTTTTACATATCATGATACGTAACTGTGGGAATATTATATGGGTTACATTTTAAATTATGTTTTTGTTTGTTGTCTAACGTGTAAAAAAGTAAAATTTCAATGGTTGTTGATGTAAGCTGTCAGACTAACATTTAAAAATTAGAGAGAGACCAGTTAATTCTCTGAGCTGGAGCTTCTTCCCATTTTGAATTAATGGCATTATATATTTTATAAAAGGTTCCCGAACGTATAGGGCATACAAACAGAAGCTGTGTGCTTTTGAAAGTTATTTAAAACCTGTCCCTAAGATAAAATACCCCTAAAAACTCTGCCCATTACCCTAGTAAAAAGTCAAGTTGCACAGTAGTTTCATACAAGGAATAATCTGTTTATTTTGGCAG
Seq C2 exon
AACCAAGTCTATCAACCTCCAAAGGATTTAACAACTTGCTGTGGTAGCTGTAAGAACATATCATGTCTCTACACTTTCAACAACGGTACAGTTTCCAATTTTAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000006208:ENSGALT00000010023:56
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:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Human
(hg38)
No conservation detected
Human
(hg19)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGAGAGACAAAGTTTGCTTGAGT
R:
ATTGGAAACTGTACCGTTGTTGA
Band lengths:
278-1472
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]