HsaINT0154491 @ hg38
Intron Retention
Gene
ENSG00000187122 | SLIT1
Description
slit guidance ligand 1 [Source:HGNC Symbol;Acc:HGNC:11085]
Coordinates
chr10:97004068-97004823:-
Coord C1 exon
chr10:97004693-97004823
Coord A exon
chr10:97004223-97004692
Coord C2 exon
chr10:97004068-97004222
Length
470 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGGG
5' ss Score
9.46
3' ss Seq
GGAACCCCCTCTTCCTCCAGTGC
3' ss Score
7.19
Exon sequences
Seq C1 exon
GTCTCCACGGCAGAGGACAATGGGATCCTTCTGTACAACGGGGACAACGACCACATTGCAGTTGAGCTGTACCAGGGCCATGTGCGTGTCAGCTACGACCCAGGCAGCTACCCCAGCTCTGCCATCTACAG
Seq A exon
GTAGGGCTTCCTTATGCCCCCCAGCTGCCCTCAGGGGTACGGGACTGCCAGGGCGAGGTCTCCTGGGCCAAAAGCAGGTGGTTATCGAGACCTCTAGAAACCTGGGCTGCCTGAGTTTGAAGGACACTTGAACCATCTGGGTTAGCCCCAGCTTGGGGCTGAGGTCTCTGAGGCCTGTGCAGTGGCCCCATCCTTCCCCATCCCACCACCACCTTAGAGGAGGCTCCTTAATGGGGAGGGGGAGACTTGTAAGTTTGAGACCCCTGCCTCAAACCTCTCAGCCTTCCCCAGGGAGTCAAAGAAGGGGAGTGAAAGGGATCATGCGATAGACCCTTGAGCCCCCACAGTCCTTTTCCTTAGATATTTGGTCTCCTGGGAAGCAGCTACTGGTGTTTCTGGGGAAGTGCCCAGGCAGGGATGGTCCAGACTGATGCCCACTCCCTGGAACGGGGAACCCCCTCTTCCTCCAG
Seq C2 exon
TGCTGAGACGATCAACGATGGGCAATTCCACACCGTTGAGCTGGTTGCCTTTGACCAGATGGTGAATCTCTCCATTGATGGCGGGAGCCCCATGACCATGGACAACTTTGGCAAACATTACACGCTCAACAGCGAGGCGCCACTCTATGTGGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000187122:ENST00000266058:33
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:
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
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCTCCACGGCAGAGGACAAT
R:
CACATAGAGTGGCGCCTCG
Band lengths:
281-751
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains