DreINT0156749 @ danRer10
Intron Retention
Gene
ENSDARG00000045748 | stab2
Description
stabilin 2 [Source:ZFIN;Acc:ZDB-GENE-041210-336]
Coordinates
chr4:10754380-10754675:+
Coord C1 exon
chr4:10754380-10754520
Coord A exon
chr4:10754521-10754615
Coord C2 exon
chr4:10754616-10754675
Length
95 bp
Sequences
Splice sites
5' ss Seq
CCGGTATGC
5' ss Score
7.63
3' ss Seq
GATCTATTTTTTTCTGACAGCGT
3' ss Score
8.23
Exon sequences
Seq C1 exon
AATACTATATACATCAATAACAAGGCCAAAGTGCTGTTCAGCGATATTGAAAGCAGCAACGGAATTTTACACGAGATCGACTCTGTCCTGGTCCCACCTGGATTAGAGATTCGGGAAGACAAAAAGCAAGACATCATACCG
Seq A exon
GTATGCATTAGCAGGATGCCTTTATTTAGTAATACCAAGTTGAATAAATCAAGCATGGGATTATTAAATAACACAGATCTATTTTTTTCTGACAG
Seq C2 exon
CGTAACTTTTCAGAAGTGGCCAGTGCCAATGGTTTCAAGACATTCTTCAAGCTTCTTGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000045748:ENSDART00000136000:49
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:
PF0246917=Fasciclin=PD(25.6=66.0)
A:
NA
C2:
PF0246917=Fasciclin=PU(7.5=50.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCAATAACAAGGCCAAAGTGCTG
R:
CTTGAAACCATTGGCACTGGC
Band lengths:
167-262
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]