RnoINT0139621 @ rn6
Intron Retention
Gene
ENSRNOG00000026065 | Slit1
Description
slit guidance ligand 1 [Source:RGD Symbol;Acc:69307]
Coordinates
chr1:260846673-260847418:-
Coord C1 exon
chr1:260847288-260847418
Coord A exon
chr1:260846828-260847287
Coord C2 exon
chr1:260846673-260846827
Length
460 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGA
5' ss Score
10.77
3' ss Seq
CCTCTCCTATTTCCTTCCAGTGC
3' ss Score
10.79
Exon sequences
Seq C1 exon
GTCTCCACAGCAGAGGACAATGGGATCCTCCTCTACAATGGGGATAATGACCACATTGCAGTTGAGCTGTACCAGGGCCATGTCCGTGTTAGCTACGACCCAGGCAGCTACCCCAGCTCTGCTATCTACAG
Seq A exon
GTAAGAATTTCTCAGGCTGTCAGCCTTCCTCGCTTGGGCATGCCGGGATGGGGCTTCTGGGTGGAGAGGTTGTGGGAACTACAGAAACATGGCTGACTAAGAAGAAAGGCCGCTTGGTTTCCTGAGTCTAGTCTACTAGTCTAGTCTAGGCTCCTCAACACTCATCTTTCCTGACCCAACCTCACCTCAGCCCCTCACTGGAGAAGAAGCTATCTCCAAATGTTTCAACCTTCCCTGGGCCTCAGGAAGGGGCAGTTGGGAGGCATCAGACCAAAGTCCACTTGGTCCCATTGGTTTTCTTCCTGAGGCCCACTCCCTGAGGCCCACTCTCTGAGGCCCACTCCCTGAGGCCCACTCCCTGAGGCTCACTCCCTGAGGTGGGCACCCACTCCCTGAGGTGGGTACCTACTCCCTGAGGCCCACTCCCTGAGGTAGGTACCCCTCTCCTATTTCCTTCCAG
Seq C2 exon
TGCTGAAACAATCAACGATGGGCAGTTCCACACAGTTGAGCTGGTGACCTTTGACCAGATGGTGAACCTCTCCATTGATGGTGGCAGCCCCATGACCATGGACAACTTTGGAAAGCACTACACACTCAACAGTGAGGCCCCCCTCTATGTGGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000026065:ENSRNOT00000034758:33
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.008 A=NA C2=0.000
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:
CTCCACAGCAGAGGACAATGG
R:
CACTGTTGAGTGTGTAGTGCT
Band lengths:
263-723
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]