DreINT0136738 @ danRer10
Intron Retention
Gene
ENSDARG00000042899 | si:ch211-163l21.8
Description
si:ch211-163l21.8 [Source:ZFIN;Acc:ZDB-GENE-041008-93]
Coordinates
chr8:23781145-23781415:+
Coord C1 exon
chr8:23781145-23781186
Coord A exon
chr8:23781187-23781264
Coord C2 exon
chr8:23781265-23781415
Length
78 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAGA
5' ss Score
10.06
3' ss Seq
GTGTGTCCATTCTCATTTAGAGC
3' ss Score
8.76
Exon sequences
Seq C1 exon
CAATATTTCCACCATTTTAGCGTGGCTCTGTGTGGAGCAGAG
Seq A exon
GTAAGAATTTTAAATGAGGGTAGATTAGGTGAGGGTACATTTACAATCACATATTCAAGTGTGTCCATTCTCATTTAG
Seq C2 exon
AGCAGGGCTGTTGCATCCTGTGTGGAGAATGTGACTGAAAGCAAGAGGGAGGTGAAAGGATATATCTGTCAGTCCACGGTAGTACCTTCTGAGATCAGGGGTCAAAGTGTTGTGTCCTCTCAGCCCTTCAGTATTGGAGACACTTTAATCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000042899:ENSDART00000137820:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
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:
TCCACCATTTTAGCGTGGCTC
R:
ACTGAAGGGCTGAGAGGACAC
Band lengths:
167-245
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]