HsaINT0131704 @ hg19
Intron Retention
Gene
NA
Description
NA
Coordinates
chr20:62193176-62193556:-
Coord C1 exon
chr20:62193425-62193556
Coord A exon
chr20:62193338-62193424
Coord C2 exon
chr20:62193176-62193337
Length
87 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGGG
5' ss Score
9.46
3' ss Seq
CTCCTATTCTCTGGCTGCAGGTA
3' ss Score
9.04
Exon sequences
Seq C1 exon
TGATCCCCAGCAGGTTCCTGGAGCGGCAGACCTACAACATCCCCGGAGGCCGCCACAAGCTGAACCCCAGCCAGAACGTGGCGGTCAGGGAGGCTCTGGAGAAGCCTTTCACGGTCATTCAGGGCCCACCAG
Seq A exon
GTAGGGCCCATGCCGGGGGAGCCGCAGGCTGCCTTGGGCCACAGGGACCCACAGGGTGGGCTACAATCTCCTATTCTCTGGCTGCAG
Seq C2 exon
GTACAGGGAAGACGATCGTGGGCCTCCACATCGTATTCTGGTTTCATAAATCAAACCAGGAGCAGGTGCAGCCCGGAGGCCCCCCCCGTGGGGAGAAGCGGCTGGGGGGTCCCTGCATCTTGTACTGCGGCCCCTCCAACAAGTCGGTGGATGTCCTGGCAG
VastDB Features
Vast-tools module Information
Secondary ID
-PRIC285:NM_033405:5
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
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
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGCTCTGGAGAAGCCTTTCAC
R:
GCAGTACAAGATGCAGGGACC
Band lengths:
169-256
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)