DreINT0152371 @ danRer10
Intron Retention
Gene
ENSDARG00000044954 | slit1a
Description
slit homolog 1a (Drosophila) [Source:ZFIN;Acc:ZDB-GENE-030722-3]
Coordinates
chr13:442380-442632:-
Coord C1 exon
chr13:442561-442632
Coord A exon
chr13:442452-442560
Coord C2 exon
chr13:442380-442451
Length
109 bp
Sequences
Splice sites
5' ss Seq
ACTGTACGT
5' ss Score
6.33
3' ss Seq
TGTGTGTGTGTGTCCTGCAGGAT
3' ss Score
12.38
Exon sequences
Seq C1 exon
AGATTTGAGCAACAACAGGATCAGCTCTCTGACCAACTCCTCCTTCACCAACATGAGCCAGCTGACCACACT
Seq A exon
GTACGTCCACTGCTGAGTGTGTGTGTGTGTGTGTGTGTGATGTATATTCATGTTGTGCGTGTGTGTGTGTGATGTGCACTAATGTTGTATGTGTGTGTGTGTCCTGCAG
Seq C2 exon
GATCCTGAGTTATAATGCTCTGCGCTGCATCCCCACTCTGGCCTTCAGTGGGCTGCGCTCGCTCCGCCTGCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000044954:ENSDART00000128969:23
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(37.0=68.0),PF138551=LRR_8=PU(8.2=20.0)
A:
NA
C2:
PF138551=LRR_8=FE(39.3=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:
TTTGAGCAACAACAGGATCAGCT
R:
GCCCACTGAAGGCCAGAGT
Band lengths:
122-231
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]