DreINT0142039 @ danRer10
Intron Retention
Gene
ENSDARG00000068846 | si:ch73-95l15.3
Description
si:ch73-95l15.3 [Source:ZFIN;Acc:ZDB-GENE-131125-23]
Coordinates
chr15:35076347-35076748:+
Coord C1 exon
chr15:35076347-35076492
Coord A exon
chr15:35076493-35076586
Coord C2 exon
chr15:35076587-35076748
Length
94 bp
Sequences
Splice sites
5' ss Seq
AAGGTCGGT
5' ss Score
7.13
3' ss Seq
TGTTTGATTTCATGTTATAGGCT
3' ss Score
8.1
Exon sequences
Seq C1 exon
AACGCAAGTGTCAATAACAAAACGCATGAAATCGGCAATAAAGGAAGCGGCCTATAAAAGCATCACCTCAAATGGCAAAACATCACCTGAGGAACAAATTACAGCTGTATCGCGACCGATGCCCAACTCTTGAGTGTCTTGCTAAG
Seq A exon
GTCGGTCTTGTCTACTTAAATGCCAAATAAATATTTTGGTCAGTTAACGTTAAAATATACAATAAACATATAAATGTTTGATTTCATGTTATAG
Seq C2 exon
GCTGTTGTCGCGATGACTGACGGCTGTAGACCATGTGTTTTCATCTGGGCTGTGTTGCTGCTGCTGCCCACAGTCATCATGGCGTACAGACCAGTGATTCTTGTTCACGGGCTCTTCGGTGGACCTGAACAGATGGCGACGTTGAAGAAATATATTAAACGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000068846:ENSDART00000155368:2
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:
PF0208910=Palm_thioest=PU(10.5=50.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Human
(hg19)
No conservation detected
Mouse
(mm10)
No conservation detected
Mouse
(mm9)
No conservation detected
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GACCGATGCCCAACTCTTGAG
R:
TCAACGTCGCCATCTGTTCAG
Band lengths:
178-272
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]