DreINT0152382 @ danRer10
Intron Retention
Gene
ENSDARG00000044954 | slit1a
Description
slit homolog 1a (Drosophila) [Source:ZFIN;Acc:ZDB-GENE-030722-3]
Coordinates
chr13:431280-431722:-
Coord C1 exon
chr13:431592-431722
Coord A exon
chr13:431435-431591
Coord C2 exon
chr13:431280-431434
Length
157 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAAC
5' ss Score
5.56
3' ss Seq
GCTGTGTGTTTTGTGCGCAGCAC
3' ss Score
8.35
Exon sequences
Seq C1 exon
GTGTCCACAGCTGAAGATAATGGCATTCTTCTGTACAATGGAGACAACGATCATATTGCAGTGGAGATTCATGAAGGTCATGTTAAAGTCAGCTACGACCCCGGCAGCCAACAAAGCCACGCCATCTACAG
Seq A exon
GTGAACACTGAACACTGCTGTCTATAATGAGCACCTATTCACTATTGAGCTGTGTGATTAGAGATCATGAGTTTTTCTGTTCAGCATTTCCCCCTCACACCTGTAGAATCTCCGTATATATAATCTGACGGTCCTCTGCTGTGTGTTTTGTGCGCAG
Seq C2 exon
CACTGAGACGGTCAATGATGGTCAGTTCCACACCGTAGAGCTGGTGACCTTTGACCAGATGGTGAATCTGTCTATAGACGGCGGCAGCCCCACGACCATGGACAGCTTCGGGAAGGTGCAGCCGCTGAGGGGAGAAGCTCCGCTGTATGTAGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000044954:ENSDART00000128969:33
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.114 A=NA C2=0.113
Domain overlap (PFAM):
C1:
PF0221019=Laminin_G_2=PU(33.3=97.7)
A:
NA
C2:
PF0221019=Laminin_G_2=FE(40.3=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:
GTCCACAGCTGAAGATAATGGCA
R:
ACCTTCCCGAAGCTGTCCAT
Band lengths:
246-403
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]