HsaINT0145304 @ hg19
Intron Retention
Gene
NA
Description
NA
Coordinates
chr9:127733649-127734123:-
Coord C1 exon
chr9:127733950-127734123
Coord A exon
chr9:127733750-127733949
Coord C2 exon
chr9:127733649-127733749
Length
200 bp
Sequences
Splice sites
5' ss Seq
TAGGTACCC
5' ss Score
5.35
3' ss Seq
CACTTTTCTCCTCTTTGCAGATC
3' ss Score
12.56
Exon sequences
Seq C1 exon
ATCAATCTCAGCGAGGTAGCCTCTTCACTCTCTTTTTGAACAATCCTCTAATGGCCTTCCTATTTGTCTCTGGATTGTCAAGCATGCGCAGAGGCCTATGGGAAAAGTGTCAAGAATATCTTCGAAAAATCAACCGTGATATTGCCCAGCTACTGACTCATTCACGTTCAATAG
Seq A exon
GTACCCTCCTAATCTAACTGCACGTTTAACAGAATGTACTATAATGGCTTAAAATGGTTACTTATTTTAAATTGTTTGAATTTTTAAAGGTATGTGTCCCAGGCAGGAAAGTTGAGAACGCTTTCCTGAAGTTTCCTTCCCCTTTGAAACATAATTTCCATTTAAGCATCTTTTTACTGTCACTTTTCTCCTCTTTGCAG
Seq C2 exon
ATCAGGCATTTCTCCAGTTTTTTGGAGATGAATTTCTTCGCTTGCTCCTCACAAGATTTATCTTTTGTTCAGCCACCATGAGGATGCACAAGATTTTTCGG
VastDB Features
Vast-tools module Information
Secondary ID
-SCAI:NM_001144877:16
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=NA
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NA
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:
ATCAATCTCAGCGAGGTAGCCT
R:
ATCTTGTGCATCCTCATGGTGG
Band lengths:
268-468
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)