HsaINT0154485 @ hg19
Intron Retention
Gene
ENSG00000187122 | SLIT1
Description
slit homolog 1 (Drosophila) [Source:HGNC Symbol;Acc:11085]
Coordinates
chr10:98773776-98778440:-
Coord C1 exon
chr10:98778343-98778440
Coord A exon
chr10:98773916-98778342
Coord C2 exon
chr10:98773776-98773915
Length
4427 bp
Sequences
Splice sites
5' ss Seq
CACGTGAGT
5' ss Score
9.3
3' ss Seq
TCCTCCCCTTCCCCGCACAGGTG
3' ss Score
11.29
Exon sequences
Seq C1 exon
GGTCGAGACTGTGAGGTGTCCCTGGACAGCTGTTCCAGTGGCCCCTGTGAAAATGGGGGCACCTGCCATGCACAGGAGGGCGAGGATGCCCCGTTCAC
Seq A exon
GTGAGTTACCTGGAGGGGCAGGAGCCTGGTGAGTGCTGATGGGCCCAGCACCTGTGCCTCAGGGCCCTCCTCTCCATCAGGGATGGCCCAGGCCTCCTGTGCCCTGTGGGGAGGTGGAGGCGCACTGTCGGGGGCAGGCATGTACTCCAAATCATAGCCAGAGGGCTCTCCAAGCCCACCAGGCCAAGCCCTTCCTTGCGCAGATGCAGTGGGAGCACAGAGAGACCAGTGGATACCTAAGCCGCACAGCTCCCCAGCTCCAGGGTTGAGCAGGGCTTGGAGTGGGCTCTGCTGCCTCCTGCTCCAGGCCTTCTTCCTGCTCCTGCCAGGTGCCATGGGGGCCTTTTTGAAGGCACTCGGATTCCATGGCCAAAGCATATACAGTGCAGTGCCAAGGACCACAGCAGGGGTGTTTGAAATTCCTATAAATTTCCATTCAGGCCGTGCTCGGTGGCTCACTCCTGTAATCCCAACACTTTGGGAGGCCGAGGTGGGCAGATCACGAGGTCAGGAGTTTGAGACCAGCCTGGCCAACATAGTGAAACCCCATCTCTAATAAAAATACAAAAATTAGCTGGGTGTGGTGGCACGCGCCTGTAATCCCAGCTACTCCGGAGGCTGAGGCAGGAGAATCGCTTGAAACTGGAAGGCGGAGGTTGCAGTGAGCCAAGATCATTCCACTGCACTCCAGCCTGAGCAACAAGAGCGAAACTCTGTCTCAAAAAAAAAAAAAAAAAGAAAAGAAAATTTCCATTCACCCCAAAGCCTCCAATCTCCCTCGAAGAGCCTGCTCCTGACAGTGCTGCCTGCAGACAGGGCCCTGGCCAGCCTCCTCAAGCTGCCCCCTGAGCCCCTGAGACACAGCTGGGGCTGCCACTGGGTGGGTGAGGCCTGCCCAGAGGTGGGAGCCAAGGCCTGTTTGCTTTCTCTGGGGTCCCCCCATCTCATGAGTCACACTGGGCACTGTGGGAGGGGATAGCCCTCCGGCCCTGCCCTGAGCAGCCCATTTTCTGCTATTCAGTGAAGGGGCCAGCCCTAATGACCCCATCTCTTAAGTCCTTCCAGAGCTGACATCACAACGCAAGCGCCCTCCCACTGGCTGCTCCCCACAGGACCGCCCAATGAGCCCCACCCTCCCAGAGCTTTTCTGAGGAATACATAGTATTTAGTTGCTGAAAATAAATTGCTGGCGCAATACATTGGCTCTTCCGAAAATGATGTTGAATCTGGGGGCAGAAATGGCTGAGCCTGCCTCTGCATACCCAAATTACCAGATGTAAAAATGAATCACTAAATGGCCTCTCTTCCCCTGGTTGCCTTGGAAACGGCGTCCTTACACTCTGCACCCAGCCTCCTCGGGGCTTCGGTGAGCAACTCCCTGGGCGCGCCCTCCTCATTCCTGAGACGCCCCAGCTGGGGGCTGAAAGGACACCCCCTTCACCCTGAGATGGGGAGATGGGGCAGCCCCCTCACCTCACTGCCTTACAGAATGCGGGCTGCGGGAGTGGGCTCTCCAGGTGGAAAGGGGGTGCCTCCACGAGTTACCCCTCAACCCCAAGGCTCTCTGGGGCACCTGTTATCCCCTGACCTGTGTCTACTCCCGCTACCCTGCCCCAGCTCGTACCACAGGCCACTTTCTGAAATGTGAAACTGACCCTGTCACCCCAGCTTAAAACCCTGCTGCTGGTCCCCTCCAGCCTTCAGGGAAAACAGTTAACCACAGACCATTTCCTGCAATGGTGATTTGAATTCTTTTTACTCACAGACTCCCCAGATACATTCTAAAAACTATACACTCCCTCACACATCCTTAGATTGACAGCTAAAATTTTCATTTTAAGTTTTTCATTGCAAAGGAGGTAATTTTTCCAGATATTATAAATATTATTAACATTTAAGAATAAAACTATCACTTTATTTGGGAGGCTAAGGTGGAAGGGCCTTAAGACAAGTAGTTGGAGACTAGCCTGGGCAACATGGCAAAATCCCCATGGCAAAACCCATCTCTACAGACAATTAAAAATTAACCAGGTGTAATGGTGAATGCCTATAGTCCCAGCTTCTCAGGAGGCTGAGGAGGGAGGATCACTTGAGCTCAGGAAGTTGAGGCTGCAGTAAGCTGTGATCATACCACTGCACTCCAGTCTGGGCAACACAGTGAAACTGTCTCTAAAATAAAAAAATAAATTAAGCTTTAAAAATATGACATTAAATCACTCTTTTATCATTCTCCAATGCAATCTAAACAGCACATCATTTTGACACTTTTTTTTTTTTGAGACAGAGTCTCGCTCTGTCACCCAGGCTGGAGTGCAGTGGCGAGATCTCGACTCACTGCAACCTCTGCCTCCTGGGTTCAAGCAATTCTCCTGCCTCAGCCTCCCGAGTAGCTGGGACTACAGGCATGCACCACCACACCCGGCTAATTTTTGTATTTTTAGTAGAGACGGGGTTTCACCATGTTGGCCAGGCTGGTCTCAAACTCCTGACCTCAAGGGATCCACCCACCTTGGCCTCCCAAAGTGCTGGGATTACAGGCATGTGCCACCCCACGTGGCCAATTGGATACCATTTTAAAATGACACGAACAAGTTCTTCTTTAACAGTTAAACATTTTACCTTGTTCTTTTTTCTCCTCTAACTAGTATTTCCATTTTACTCCTTACCCTCCTGTCTTTTTTTTCTAACCAAATATATTTTTATGCTAGACTCTTTTCTTGAGTACTCTGCCATGCGTCTCTGTCCCCAACATGGGTACACGTAAGTTAAAACTTAAAGTTTTTTTCTTATTTCTCATCACCATAAGCCTCTGATTTAAAGTTTCTTTTGCAGCGAGTTATCCCTACAATAATTCGAAACAACATAACTGTATTATAGAATTGGATTGAAAATTATTACACATAGAAGGAAAATTTTATTGGACTGTATCTCTCTTAATGAGATGGATGGGTGCTTTTTTGTTCTTTTCTTCTCTCAGTTGGTTTATGGGTGAATGTTGCAGAATGAGAGAGGACACAGCGTTTGATCTTTTCCTGTTTTGTTTTTATAGATATAAATGCTGGGAAGTTTGTTCATGTAAATAAACTGGTGAGATTAGGAGTTTTATTATAGCCATGTCACTTAATTCTTTGAAAGCCCTCCCAGTTTTTATGCCAAATCTCCACAGTGACCTGTCATCAAGATTATTTTTAATGTTCTATCAGCTGACAGTTCTATGAGGCCTTCCTTCAATTACTTCCAGTGCACAGAACTGGAAACCTCTTGACTTAGATTGCATTTATTCATTCACTTTCTAAACATCAGGATTCCTAACTGCCCATTTATTTGGCACCTGGAAGCATGCCCACCTTTCTACCTGGAGGGCTTGTCCCATCACCCCCCAGTCTGTAAGGGCTGGGGCTGGGACAGATGCCACCTTTTTAGAGTTCTGAGCTGGGTCAATTTAGGGAAGAGCTCGTGCAGATATTTGAAGATCTGGAAATTAATTTCTTGGACCTCTCTCTGATCCACACACCCCTTGGAAAACCTTGGGTGCCCCAGGGGAAGGTGTATCTTGGTTTGAAAGTCACTGATCCCCAGGGCCCCTCATGACCAGGCTCCTGCTCACCGCAGCCCTTTGCTCACTGTGCTCCTGAAGTATTGGACTGTGTGGATGGGCAGGGCCCCTATAGAAGACTAGCTGTGGGGTTCCCTTCCACTCTAGGCTTTTTTTTTTTTTTTGAGACAGAGTCTTGCTGTGTCACCCAGGCTGGAGTGCAGTGGCATGATCTTGGCTAACTATAACCTCCACCTCACAGGTTCAAGCGATTCTCCTGCCTCAGCCTCCCGAGTAGTTGGGATTACAGGCACATGCCACCATGCCCAGCTAATTTTTGTATTTTAATAGAGACAGCGTTTCCCCATGTTGGCCAGGCTGGTCTCCAACTCCTGACCTCAGGTGATCCACCTGCCTTGGCCTCCCAAAGTGCTGGGATTACAGGCATGAGCCACCGCACCTGGCCACTCCAGGCTTTTACACACACCTCTGCCCCAGTCACCTTCCTCCCATTCCCGCTCTCCCTTGTCAAGGTCCTTGGTTAATTCATCACCTCCTCCAGGAAGCCTGCCCTTATCACTTTGTGCCAAGGAGGAGCCAGGTGTCTCCTGCCCCTCTGTGCCCGCTCCCTGGCTTCAGTGCTTACACCATCCTGGTCCTCACTACCTCTCCCCTCGCCATCCATCTCCTTTTAGCCTCCCCACTAGACTGTGAGTGAATCCCATGAGGGCATGGTCAGTCTTGGTCACCTCTAACCCTACCCAGCACCTGGCAAGGGCCTGGCCGGGATTAGGGACCCTAACTCCGTGGAATGGTGATATTAACCGGCAGCCACAGGCTTCCACCAGTGTTCCAAGAGGGCTGTCTCTCCATCCTCCCCTTCCCCGCACAG
Seq C2 exon
GTGCTCCTGTCCCACCGGCTTTGAAGGACCAACCTGTGGGGTGAACACAGATGACTGTGTGGATCATGCCTGTGCCAATGGGGGCGTCTGTGTGGATGGTGTGGGCAACTACACCTGCCAGTGCCCCCTGCAGTATGAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000187122-SLIT1:NM_003061:28
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:
PF0000822=EGF=PD(6.2=6.1),PF0000822=EGF=PU(64.7=66.7)
A:
NA
C2:
PF0000822=EGF=PD(32.4=22.9),PF0000822=EGF=PU(90.3=58.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
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)