HsaINT0154470 @ hg19
Intron Retention
Gene
ENSG00000187122 | SLIT1
Description
slit homolog 1 (Drosophila) [Source:HGNC Symbol;Acc:11085]
Coordinates
chr10:98807730-98808875:-
Coord C1 exon
chr10:98808712-98808875
Coord A exon
chr10:98807754-98808711
Coord C2 exon
chr10:98807730-98807753
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-SLIT1:NM_003061:14
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
No protein impact description available
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
Rat
(rn6)
No conservation detected
Chicken
(galGal4)
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]
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)