DreINT0140648 @ danRer10
Intron Retention
Gene
ENSDARG00000016464 | si:ch211-89p3.3
Description
si:ch211-89p3.3 [Source:ZFIN;Acc:ZDB-GENE-041014-372]
Coordinates
chr20:35254442-35254830:+
Coord C1 exon
chr20:35254442-35254535
Coord A exon
chr20:35254536-35254629
Coord C2 exon
chr20:35254630-35254830
Length
94 bp
Sequences
Splice sites
5' ss Seq
ACAGTGAGT
5' ss Score
8.34
3' ss Seq
TTGCTCCTGTTTTCTCTTAGGTC
3' ss Score
11.49
Exon sequences
Seq C1 exon
AGATATCAAACCAGACAATATCCTGATGGACATGAATGGTCACATCCGGCTGGCTGACTTTGGCTCCTGCCTCAAACTCATGGAAGACGGGACA
Seq A exon
GTGAGTTTAATCTCCAATGCTAAAGTTGTCCTGCACATGATTATTTATTTTCTGTAGTGTATCTTCTCGTCTTCTTGCTCCTGTTTTCTCTTAG
Seq C2 exon
GTCCAGTCCTCTGTAGCAGTTGGGACCCCGGACTACATCTCACCAGAGATCCTGCAGGCTATGGAGGACGGGAAGGGAAAGTACGGGCCCGAGTGTGACTGGTGGTCTCTGGGGGTCTGCATGTATGAGATGCTGTATGGAGAGACGCCTTTTTATGCTGAATCTCTGGTGGAGACGTATGGAAAGATCATGAACCATAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000016464:ENSDART00000040456:6
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=0.012
Domain overlap (PFAM):
C1:
PF0006920=Pkinase=FE(11.6=100)
A:
NA
C2:
PF0006920=Pkinase=FE(24.7=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCTCCTGCCTCAAACTCATGG
R:
AGGCGTCTCTCCATACAGCAT
Band lengths:
182-276
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]