HsaINT1042340 @ hg38
Intron Retention
Gene
ENSG00000187122 | SLIT1
Description
slit guidance ligand 1 [Source:HGNC Symbol;Acc:HGNC:11085]
Coordinates
chr10:97047973-97049118:-
Coord C1 exon
chr10:97048955-97049118
Coord A exon
chr10:97047997-97048954
Coord C2 exon
chr10:97047973-97047996
Length
958 bp
Sequences
Splice sites
5' ss Seq
CAGGTACCT
5' ss Score
8.16
3' ss Seq
ATTTCTGCTTCTCTTCCCAGCCA
3' ss Score
8.77
Exon sequences
Seq C1 exon
GCACCTGGCGCAGAACCCTTTCATTTGCGACTGTAACCTCAAGTGGCTGGCAGACTTCCTGCGCACCAATCCCATCGAGACGAGTGGTGCCCGCTGTGCCAGTCCCCGGCGCCTCGCCAACAAGCGCATCGGGCAGATCAAGAGCAAGAAGTTCCGGTGCTCAG
Seq A exon
GTACCTGCCCGCCTGCCCACCTGCCCACCTGTCCACCTACCTGCCTGCCCACCTGCCCACCGGCCTACTTGTCCACCTGCATACCTGCCCACCTGCCCACCTACCCGCCTGCTCACTTGCCTGCCTGCCTACCTGTCCACCTGCATACCTGCCCGCCTACCCACCTGTTCACCTACCTGCCTGCCCACCTGTTCACCTACCTGCCTCCCTGCCGGCCTGCCTGCCTACCTGTCTGCTTGTCTGTCTGTATTCAGCCTGCTCAGGGACCCCCTGATGTTTCCTGGATGGCTCCCACAAAGGTGTCTTTCATTACTGTGAACCCAGACTGGAGGGTGTGGGCCCAAAATTCTAGACTTGATCTGAATGGTAGTTCAGTCCCACCTCATTTTATTGAGGCCTAGGGAAGAAGCAAGGCTTGCTGAAGGTCCCAGAGGGAGGACTCAGGTCCCTCCACTTTTAGCCAGTTCTCTTTTATGCCTTTGTTGTCAAGCCTTTTAAGACACTCAGGAGGCCTGGGAACCCTCCTTAGTGAGATAGGAGCCTCCTCCAGGCTTTGGGATGCAGAAACAGCCTTAGCAATTGTAGTCCACGTGGCATCTGGCTGGGGACAGTGTGGGGCAGCTTCTGAGCCTACATCCTGGTCAAGGTCCTGACGCCACCTGTACCCCGTCCCCACCTGTAAAATTAGCACAGTCCCCACCTCGTGCCATTGCGAGTGAGAGCTCGATGGTTTTGGCACTCCTTGCGAGAGGTTTAACTGGATGCGACACCCCCAGTGTCAGCCTGGGCAAGGAACATGCGTGCTCTGTAGCTCGCCCTTCTGCACACAGGGACTGGGCAGATGGGCTCCTCAGCCCTGTCTGGGGTGCCTTCAGCTGAGCAGTGGGGCTGGGGCCTGGGCTGTTACTGCAGGTCCTGGCTGATTCCTGCATTATGGTATTTCTGCTTCTCTTCCCAG
Seq C2 exon
CCAAAGAGCAGTACTTCATTCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000187122:ENST00000266058:14
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
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGGCGCAGAACCCTTTCATTT
R:
TGGAATGAAGTACTGCTCTTTGG
Band lengths:
182-1140
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains