DreINT0156753 @ danRer10
Intron Retention
Gene
ENSDARG00000045748 | stab2
Description
stabilin 2 [Source:ZFIN;Acc:ZDB-GENE-041210-336]
Coordinates
chr4:10755623-10755988:+
Coord C1 exon
chr4:10755623-10755769
Coord A exon
chr4:10755770-10755928
Coord C2 exon
chr4:10755929-10755988
Length
159 bp
Sequences
Splice sites
5' ss Seq
ACGGTGGGT
5' ss Score
8.27
3' ss Seq
TTTTTCTTTTGCTGTAATAGTTA
3' ss Score
6.79
Exon sequences
Seq C1 exon
GGGGAGCTTTATGTGAATCATAAAGGCTGTCGTATTGTAAAGAGATATCTTGATTTTAATGGAGGCATGATTTATGGCATTGAATGTCTGCTGAATCCTCCAAGCCTTGGGGGACGTTGTGATCACAGGCAAACCATTGATTTCACG
Seq A exon
GTGGGTCCCAGCTAACTTTTAAGCATTTTAAATGGGTAAAAATAATATCCTTGTAGTACGTTGCAGAATGTGTGTATTATGTTGTATTCAATTTAAAGTGATCAGATTCAAATCAAGTATGTTGAAAAACATTGTGCTTTTTTTCTTTTGCTGTAATAG
Seq C2 exon
TTAGCTTGCCGGAGTTGTGGGAGCAGTATTATGGATTGTCCACTTGGAAGCAAGCCAGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000045748:ENSDART00000136000:53
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(24.1=65.3)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGTGAATCATAAAGGCTGTCGT
R:
TGCTTCCAAGTGGACAATCCA
Band lengths:
188-347
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]