DreINT0152370 @ danRer10
Intron Retention
Gene
ENSDARG00000044954 | slit1a
Description
slit homolog 1a (Drosophila) [Source:ZFIN;Acc:ZDB-GENE-030722-3]
Coordinates
chr13:442561-442794:-
Coord C1 exon
chr13:442726-442794
Coord A exon
chr13:442633-442725
Coord C2 exon
chr13:442561-442632
Length
93 bp
Sequences
Splice sites
5' ss Seq
GGTGTAGGT
5' ss Score
2.21
3' ss Seq
CTGATCTGACTGTGTTTCAGAGA
3' ss Score
8.48
Exon sequences
Seq C1 exon
GTATCTGGATGGGAACCAGCTGAGCACGGTGCCAAAGGAGCTGTCGTCCTTCAAGAGTCTGCAGCTGGT
Seq A exon
GTAGGTCACAATCTGTGTTTCACCCTCATTAGTGTGCACTCTTCAGTGTGCAGCTTTACACTCTTCATGTGTGCTGATCTGACTGTGTTTCAG
Seq C2 exon
AGATTTGAGCAACAACAGGATCAGCTCTCTGACCAACTCCTCCTTCACCAACATGAGCCAGCTGACCACACT
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000044954:ENSDART00000128969:22
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=FE(50.0=100)
A:
NA
C2:
PF127992=LRR_4=PD(37.0=68.0),PF138551=LRR_8=PU(8.2=20.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAACCAGCTGAGCACGGTG
R:
TGTGGTCAGCTGGCTCATGTT
Band lengths:
127-220
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]