DreINT0108278 @ danRer10
Intron Retention
Gene
ENSDARG00000087227 | oit3
Description
oncoprotein induced transcript 3 [Source:ZFIN;Acc:ZDB-GENE-130530-907]
Coordinates
chr13:4556723-4557373:-
Coord C1 exon
chr13:4557274-4557373
Coord A exon
chr13:4557081-4557273
Coord C2 exon
chr13:4556723-4557080
Length
193 bp
Sequences
Splice sites
5' ss Seq
AGAGTGAGT
5' ss Score
7.36
3' ss Seq
ATTTGTCCGTGCTGTGTTAGGAA
3' ss Score
6.8
Exon sequences
Seq C1 exon
GTGCATTTCTGATGAAACGGTGCGTCAGCTTTCGGCTAAAGACGAGCTCTCCAAACACTACCAGGTCCCAGTCTTCAAGTTCATCGGCAAGGACAACAGA
Seq A exon
GTGAGTAGGGAACAGGTGCATGCTGGGACAATTCAGCTTGTGCTTTTGTGTGTGTGTGCGTGTGCGTGCATGCGTGCGTGTCTGTGCGTGCGTGCGTGTCTGTGCGTGCGTGCGTGCGCGCTAATGAGCCAGTTGTGATAAATGCATATGAAAATAAGCGAGTCGTTGACTGAATTTGTCCGTGCTGTGTTAG
Seq C2 exon
GAAGTGTTTCTGCATTGCCGTGTGCTCGTGTGTGGGCAGACACAAGGGGAGTCTCGCTGTACACAGGGCTGCCGAAAGCGTTTGAGAAGAGATGTCTGGATTGATCAGCACCAAGAGCAAAACATACTGTCCAGTGGGCCGATTCACATACTGCCAGATCCATGAGCCAGCATAAAGTAAACAGCGCCATCTACAGACTAACCTAACGTATTTCAACACCCAATCACAGTCTGCACTGGAAAACAAATAAGTTAATTAACAGTTTACGTATTTTGTTTTCCATTCATGTACAGTTGGGAATTGCATTATGGGCTGTTGATCTCTGCTCTGTGGACTCTTGATGTTGAAAATTCAACTC
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000087227:ENSDART00000128422:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.037
Domain overlap (PFAM):
C1:
PF0010018=Zona_pellucida=FE(13.3=100)
A:
NA
C2:
PF0010018=Zona_pellucida=PD(10.4=47.3)
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:
TCTGATGAAACGGTGCGTCAG
R:
GTATGTGAATCGGCCCACTGG
Band lengths:
244-437
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]