HsaINT0154480 @ hg19
Intron Retention
Gene
ENSG00000187122 | SLIT1
Description
slit homolog 1 (Drosophila) [Source:HGNC Symbol;Acc:11085]
Coordinates
chr10:98791363-98794299:-
Coord C1 exon
chr10:98794228-98794299
Coord A exon
chr10:98791435-98794227
Coord C2 exon
chr10:98791363-98791434
Length
2793 bp
Sequences
Splice sites
5' ss Seq
TCTGTGAGT
5' ss Score
7
3' ss Seq
TCCATCTCCTTCCTCCGCAGGAT
3' ss Score
12.46
Exon sequences
Seq C1 exon
GGACCTGAGCAACAACAAGATCAGTTCCTTAAGCAATTCCTCCTTCACCAACATGAGCCAGCTGACCACTCT
Seq A exon
GTGAGTCCCAGCAGGGCTGGGGTGGGGGGCCCCGGGGCCATGGCTGTGAGTCATTCCCTAGCCCCAGCCTGTGCTTTTTGCTCCCAGATCCCTCGCCTGCAGACGCCTTGCCCTCTGGAGAGGGTGCCGGGCCTGAGAGCCTAAAAGACTTTGAAAAAACATCTTTCATTGTGAAATACAACATATGGCATATATGGAAAATAATAATGCAAAAAGTAAATAGTGCAAAAAAATAAATATACAGTTTCACAAATAATCATAAAGCTAGCACACATGTAGATACCAAGTCAAAAATTAAGGACACTCGGCCAGGCGCAGTGGCTCACGCCTATAATCCCAGCACTTTGGGAGGCAGAGGCAGGTGAATCACTTGAGGTCAGGAATTCAAGACCACCCTGACCAACATGGTGAAACCCCATGTCTACCAAAAATACAAAAATTAATCGGGCTGGGTGGCGGGTGCCTGTAGTCCCACCTACTTGGGAGGCTGAGGCAGGAGAATCGCGTGAACCTGGGAGGTGGAGCTTGCAGTGAGCCAAGATCGTGCCATTGCACTCCAGCCTGGGTGATAGAGCGAGACTCTGTCTCAGAAAAAAAAAAAAAAAAAAAATAGAACAGTGCTAGCACCTTGTCCCTTCCTGATCCTTATTGCTGTCTCCTCCCCTACCCCAAGGCAGCTGCTGTCCTGACTTTATGAGGATCACTTCTTTTATTTTCTTTACAGCATTACCATCTACATAAGCATTTCTAAATAATATAGTCTAATTTTGTCGATTTTCACTTTGTTCAAGTGGAATCATATGGGTGATAGTCTTTTGTATCTGGCTTCTCTTGCTTAGCATTGTCTATGAGATCCATTCATGCCACCGTGGCAGCTGTGGTCTGTTCATTCTCATTGCTAGGTAATGTTCCTTTGGAGGAACGGGCCACACTTTCCTCATCTATTCTAGTCTTGATGGATATTGAGGTTGTTTCCAGTTTGGATTGTTGTGAGCGGTGACCCTCTGAACATTTTTTGTGGCCATATTCTAAGATATTTAAATGCTGGCTTTAATTATATTCCAAGCAACTGATCAGAACATATTACCAAGTGTCCCTTATATTTGCCTGGTGTGTAAAAGTATCTCATTCACCTTCCAACACCTCACTTTACAGATAGAACAGTAGAGCCAGTACCCAAAAAAGGAAGGGGCCCTGACCCAGCCATTCTCCAGGAGCTGAATGTGGGCCCAAGCCAAAATACAAAATAAAAAAATTAGTCAGGTGTGGTGGTGCACATCTGTGGTCCCAGCTACTTGGGGGGCTGAGGTGGGAGGATGGTTTGAGCCTGGGAGGCAGAGGTTGCAGCAAGCCAAGATCACACCCCTGCACCCCATCCTGGGTGACAGAGCTGGACCTTGTCTCAAAAAAAAAAAAAAAAGAAAGAAAGAAAAAGAGTGCTATTCTTGATAATCCCCTGCTCCTGCCTCTCCCAGCTCCGAGACCCAGGCAACCACTGGTCTGCTTTCTGTCACTGTAGGTTAGTTTGCATTTTCTAGGGTTTTACATACAAATGGAGAAAGTCGTTTTTGCTTGGCTTCTGCGCCCAGCATGATTATTTTGAGCTTCACCCATGGTGTGGTGTTGCATGTGCCGGTAGCTCTTTCTCATTGCTGAGCTGTGTTCCACTGTACAGGCATGGATGTGCCACAGTTTGCTCATCCATTCGTCTGCTGGGGAACACGGGGGCTGTTTCCAGCATGACGCTATTGCAAGTGTGATTTCCCTTGTTAATCTGCCTGTCTGCCCTGGATGGATTCAGTTACTTGGAAGCATTTTGGGACAGTGGCTTAGCCTGTGGGCTCTGGAAACTGAAAGCTATAATGAAAATCCCTTCTTAATAACTTTTTTTTTTTTTTTTGAGATGGGGAGTCTCGCTCTGTCGCCCAGGCTGGAGTGCAGTGGCGCGATTTTGGCTCACTGCAACCTCTGCCTCCCAGATTCAAGTGATTCCCCTGCCTCAGCCTCTCGAGTAGCTGGGATTATAGGCGTCTACCACCATGCCTGGCTAATATTTGTATTTTTAGGAGAGACGGGGTTTTGCCATGTCGGTCAGGCTGTTCTCAAACTCCTGACCTCAGGTGATCCGCCCACCTCAGCTTCCCAAAGTGCTGGGATTACAAGAGTCAGCCACCGCATCCAGCCTTCTTAATGACTTAATAATGTGACCCTGGAGAAGTTTTTTCACCTCTCAAGGCCTCAGTCTCCTCATCTATAAGATGGGAATAGTGACAGCACCTTCCTCACTGTCACAGCTTTTCAATAGTAAATTATTGTAGATGACTTTGCCTGTCCTCCCTGGAAGTGGTCGGCTGAGACGGTGAGCTCCCCGCAGTCAGGTGTCACCTTCATAGGGAACTCGCCTATGCACCTTGCTGGGGCAGCCCCTTAGGGAATGTTCTCAATCATAACAACAGCAACTCTCCTTTGTTGAGGATTTATTGGAGTCAGGCATGATGCTAAGTGCTTCACCTGGATTTCGTCCCCAGGACAGCCCTATGGAGTTGGCATTATTTTTGTCCCTATTTTACAGTCGGGGGAACTGATTGAGGCAGAAGGGATTAGGGGGCATGCCCAAGACCACCAGCTTCTTAGGGCGCAGCCCAGCCCATGCACTTGCCGGCTGCTCTGCCTCCCCTCACAGAGCCCGAGGAGGCTGCTGGGTGAGAGGGACCTCCACGTCCTGGGCGGCGGCTGTGCCCACAGGGGCCAGGCACTAACACAGTGCCCTTCCTCCATCTCCTTCCTCCGCAG
Seq C2 exon
GATCCTCAGCTACAATGCCCTGCAGTGCATCCCGCCTTTGGCCTTCCAGGGACTCCGCTCCCTGCGCCTGCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000187122-SLIT1:NM_003061:23
Average complexity
IR-S
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:
PF138551=LRR_8=FE(39.3=100)
A:
NA
C2:
PF138551=LRR_8=FE(39.3=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:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)