RnoINT0139600 @ rn6
Intron Retention
Gene
ENSRNOG00000026065 | Slit1
Description
slit guidance ligand 1 [Source:RGD Symbol;Acc:69307]
Coordinates
chr1:260883686-260884516:-
Coord C1 exon
chr1:260884353-260884516
Coord A exon
chr1:260883710-260884352
Coord C2 exon
chr1:260883686-260883709
Length
643 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGG
5' ss Score
11.08
3' ss Seq
CGTTTGCTTTTTTTCCCCAGCCA
3' ss Score
8.13
Exon sequences
Seq C1 exon
GCATCTGGCCCAGAACCCTTTCATCTGTGACTGTAACCTCAAGTGGCTAGCAGACTTCTTACGTACCAACCCCATTGAGACAACTGGGGCCCGCTGTGCCAGCCCCCGGCGCCTTGCCAACAAGCGTATCGGGCAGATCAAAAGCAAGAAGTTCCGGTGCTCAG
Seq A exon
GTAAGGGCCACCTATGTCTCCAGTGGGCCTGTGCACTTAGTGTTGCCCAGCAAACTTAGCTCTTAGCAAAGATGTCCTCAGGCACTTTGGGACTTGCTAGGGCGGTGTGGGCCTGCATTTGTCTTGGATGGGATGGTTCCTCTGTCTTGCCCATCACTTTATCACGGCCTTGGGGTGGTTGGCTCAGTGAGGCTGTGGATGGAGAGCTTCCCATCCCTCTGTTCTAGGCCAGTTCTTCTGTGTGTCACTGTGTTTGAGGCTTAGGACGCGTCTCAGTGAGTAGGAGACCCTTCTAGAACCAAGATGGAGAAGTGGCCTCAGCATATGCAGCCCACTTGGCATCTGGCCGTGGGCAGTTTGGGTCAGCTTCTGTTCCTGGGTGTTTGGTTCAGGAGGAGCCTGGTGCCACCCCTACCTTGACCCTATCGTAAGGTTAGCACAGCGCCTGTGTATGTTGTGCAAATGAAAGCTTTATTTGGCCTGGGGACATGAGTGTTCTGTAGGAAGACTTTCTACATACAAAGATGGGCAGAGGAGAGGCGTCTCAGGCAGGGTCCCAGCTGCATTCCTGGGGTGCCTTCCACGGGGCATGGGCTTGCCCTAGCTGCTCCTATAGCCTGGTGCGTTTGCTTTTTTTCCCCAG
Seq C2 exon
CCAAAGAGCAGTACTTCATTCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000026065:ENSRNOT00000034758:14
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(37.5=32.1)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGGCCCAGAACCCTTTCATC
R:
TGGAATGAAGTACTGCTCTTTGG
Band lengths:
183-826
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]