DreINT0152460 @ danRer10
Intron Retention
Gene
ENSDARG00000034268 | slit3
Description
slit homolog 3 (Drosophila) [Source:ZFIN;Acc:ZDB-GENE-010306-4]
Coordinates
chr14:24239427-24239727:-
Coord C1 exon
chr14:24239656-24239727
Coord A exon
chr14:24239499-24239655
Coord C2 exon
chr14:24239427-24239498
Length
157 bp
Sequences
Splice sites
5' ss Seq
CCTGTAAGT
5' ss Score
7.52
3' ss Seq
TTTGTTCTTTTTCTCTGCAGTAT
3' ss Score
10.05
Exon sequences
Seq C1 exon
AGACCTTAGTAATAACAGCATCAGTCATCTTGCCCCTCTCACCTTCAGCAACATGACACAGCTCGCCACCCT
Seq A exon
GTAAGTTAAAACCATAATCCAACAATCTAATACTGTTTCTATGTCAACATATGTGTTTGTCAGTGCTGCCATTTGAACATGAATACCACATCTTCGAGAAAAGAAAAATTCAGGCATTAAATGAATGGTTCGCTGTCTTTGTTCTTTTTCTCTGCAG
Seq C2 exon
TATCCTGAGCTATAATCAAATACGCTGCGTCCCGGTTCATGCGTTTGATGGCTTGCGCTCTCTCCGCCTGCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000034268:ENSDART00000146299:22
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:
PF127992=LRR_4=PD(39.5=68.0),PF138551=LRR_8=PU(6.7=16.0)
A:
NA
C2:
PF138551=LRR_8=FE(40.0=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACCTTAGTAATAACAGCATCAGTCA
R:
AGGCGGAGAGAGCGCAAG
Band lengths:
139-296
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]