DreINT0108272 @ danRer10
Intron Retention
Gene
ENSDARG00000087227 | oit3
Description
oncoprotein induced transcript 3 [Source:ZFIN;Acc:ZDB-GENE-130530-907]
Coordinates
chr13:4573465-4575679:-
Coord C1 exon
chr13:4575305-4575679
Coord A exon
chr13:4573579-4575304
Coord C2 exon
chr13:4573465-4573578
Length
1726 bp
Sequences
Splice sites
5' ss Seq
GCCGTAAGT
5' ss Score
10.11
3' ss Seq
TGTAATGTGTACCGCCATAGATT
3' ss Score
5.65
Exon sequences
Seq C1 exon
CCTTAGATCCCTGCTCAGCGTACATTAGTCTGAACGAACCATGGAGGAACACTGACTACCATGTCAACAACTCTGCGGGTGTCCCTCTGTGCGACCGGCATGTATCAGGGGAATGGTATCGCTTCACGGGTATGGCTGGAGATGCTATGCCAACCTTCTGTATCCAAGAAAACCACTGTGGAACCCATGCGCCCATTTGGCTGAATGGGAGTCACCCTGGGCCTAGTGATGGAGTTGTTACTCTATCTGCGTGTGCTAGCTTCAATAATAACTGCTGCCATTGGACTGCTAGTGTGGAGATAAAGGCCTGTCCGAGAGGTTACTATGTCTATCGTTTACCCCGGCCCTCTGTCTGCTTCCACGTTTACTGTGGCC
Seq A exon
GTAAGTATTCATCTTGCCTCGCTATACACTCAAAAAAAGTTGCATTGATGTAAAAAAAAGTTGTATTGATTAAAAAAAGATGTTTGATGTTTGTTCAAACTACTTATTTAAAATGAGCTGAAACAAATTAGCAAAAACGTATAAGTTAGCAATATCGCCAGTATGCCAATGCCTGCTATGCCAGCTTTATGCCAAATTAGGGCCAGATTTTTTTCTGCCTGCATAATATTTAAAATTGGGTTCTCCAGGAGTATGCAATGAGCTTGGAAAATTTTAGAGCTTGAGGATTTAATATATAATGGTTAGATTTTGCATCTAGAGTAGATTTAGTAGAGTAGATCTAGACTATATTTAGTAGATTATATCTAGAGTAGATTTAGTAGAGTAGATCTGGAGTAGATTTAGTAGAGTAGATCTAGACTAGATTTAATAGAGTAGATCTGGATTAGATTTATTATAGTAGATCTAGACTAGATTTAGTAGAGTAGATCTGGATTAAATTTAGTAGAGTAGATCTAGACTACATTTAGTAGAGTAGATTTAGTAGAGTAGATCTAGACTAGATTTAGTAGAATAGATCTGGATTAGATTTAGTATAGTAGATCTAGACTAGATTTAGTAGAGTAGATCTGGATTAAATTTAGTAGAGTAGATCTAGACTACATTTAGTAGAGTAGATTTAGTAGAGTAGATCTAGACTAGATTTAGTAGAGTATATCTTGAGTAGATCTAGTCTAGATTTAGTGGAGAATATCTAGAGTAGATTTAGTAGAGTAAATCTAGAGTAGATTTAGTAGAGTAAATCTAGAGTAGATTTAGTAGAGTATATCTAGAGCAGATTCAGTAGAGTAGATCTAGAGTTGATTTAGTAGAGTATATCTAGAGCAGATTCAGTAGAGTAGATCTAGAGTTGATTTAGTAGAGTATAAATAGACTAGGTTTAGTAAAGTATATATATATATATATATATATATATATATATATATATATATATATATATATATATATAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGTAGATCTAGGGTAGAATTCGTAAAGTAGATCTAGAGTTAAGTAGAATAGATCTAGAGTAGATTTAGTAGAGTAGATTTAGACTAGATTTAGTAAAGTATATTTAGAGTAGATTTAGTAGAATAGATCTAGATTAGATTTAGTAGAGAAGATCTAGAGTAGATTTAGTAAAGTATATCTAGAATTGATTTAGCAGAGTAGAACAAGACTAGGCTTAGTAAAGTGTATATAGAGTAGATCTAGACTAGATTTAGTGGAGTAGAGTAGATCTAGACTAGATTTAGTGGAGTAGAGTAGATCTAGGGAAGATTTAGTAAAGTATATCTAGAGAAGATTTAGTCAACTAAAATCTTATTTATTCAGTCAACTCAGACTAAAGCTAGAATGAATTCAGAAGGCTGAATACCGTTTTAGTATGATTTAGTAGGTTTAGAAAAGATTTAGTCAACTTAGACTAAAACTGCAACAAATTCAGAAGACTGAAATACTGTGTGACCAAAGCTAAATAGTATTTCAGTAAAAAACTAAGGGTAAAATTAAATCAAAATGAACACCGGTTTGATTTGAAATGATGGTTTGGTTTAAATTTTAGCATGAACTAACCCTTAGAGAATTGACTTCCCTCAGACTTTTTTGTAATGTGTACCGCCATAG
Seq C2 exon
ATTTCTATGACATATGTGATGAGATAGAGTGTACAGGATCTGACTGCCCTGTCGAGCCTGAATGCCGATGCTCTGAGGGAACCATTCTAGGCCCTGATGCACAGACATGTCTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000087227:ENSDART00000128422:2
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
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTCACGGGTATGGCTGGAGAT
R:
AGGGCCTAGAATGGTTCCCTC
Band lengths:
348-2074
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]