DreINT0144168 @ danRer10
Intron Retention
Gene
ENSDARG00000096187 | si:dkey-21h14.10
Description
si:dkey-21h14.10 [Source:ZFIN;Acc:ZDB-GENE-110913-2]
Coordinates
chr4:11114707-11115315:-
Coord C1 exon
chr4:11115001-11115315
Coord A exon
chr4:11114926-11115000
Coord C2 exon
chr4:11114707-11114925
Length
75 bp
Sequences
Splice sites
5' ss Seq
CAGGTCACT
5' ss Score
3.41
3' ss Seq
GTTCTTATTTGTTTTAATAGACT
3' ss Score
6.72
Exon sequences
Seq C1 exon
CTCATGTTCCTCTCAGACTGCGTGGAGGGGATGGCCGGTGCTCTGGGAGGCTGGAGGTGTATCATAACGCTGTGTGGGGCTCAGTCTGTGATGATCTCTGGGACATCAGCGATGCTCAGGTGGTCTGCAGGCAGCTGGGTTGTGGAGCAGCACTGAGGGCTGATGGGAATTCAGCCTTTGGTGCTGGTGAAGGTGTTGTGTGGCTGAACAGAGTCCAGTGCAGAGGGAATGAGCTTCACCTGTGGGACTGTCCTCTCTCCCTGAACAACCACACTGACTGCTCCCACAAAGAGCACGCTGGACTTTCCTGTGCAG
Seq A exon
GTCACTGCTAGATTTTAAAATAATTTTAATTCTAGTAATAATTTTTTATTTAAATGTTCTTATTTGTTTTAATAG
Seq C2 exon
ACTTGCCGGATATATCAGTGTCCACTACTCCTTCCACATCAGCATCATCTTCTGCTGCAGTTTCTCAGACAGTGAGCTCAACATCAGTCTCTCCTCCACAAACTGGTCCAGAAACTCTCCCAGTCCCCCCAGTGCTGCTGATTGTACTGGGAGTTGTGCTCTTACTGCTCTTAGTGCCGCTGCTTATACTGATTCAGCAGAACAGAGTGATGAGGAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000096187:ENSDART00000150600:11
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=0.338
Domain overlap (PFAM):
C1:
PF0053013=SRCR=WD(100=92.5),PF151021=TMEM154=PU(13.4=14.2)
A:
NA
C2:
PF151021=TMEM154=FE(65.2=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AACAACCACACTGACTGCTCC
R:
GGGACTGGGAGAGTTTCTGGA
Band lengths:
179-254
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]