HsaINT0041241 @ hg19
Intron Retention
Gene
ENSG00000148204 | CRB2
Description
crumbs homolog 2 (Drosophila) [Source:HGNC Symbol;Acc:18688]
Coordinates
chr9:126129451-126129965:+
Coord C1 exon
chr9:126129451-126129636
Coord A exon
chr9:126129637-126129851
Coord C2 exon
chr9:126129852-126129965
Length
215 bp
Sequences
Splice sites
5' ss Seq
AGGGTGAGC
5' ss Score
7.75
3' ss Seq
CACAGCTGGGCCTCTTACAGGAG
3' ss Score
5.02
Exon sequences
Seq C1 exon
GCTACAGCGGCGAGCTGTGCGAGGTGGACGAGGACGAGTGTGCATCGAGCCCCTGCCAGCATGGGGGCCGATGCCTGCAGCGCTCTGACCCGGCCCTCTACGGGGGTGTCCAGGCCGCCTTCCCTGGCGCCTTCAGCTTCCGCCATGCTGCGGGTTTCCTGTGCCACTGCCCTCCTGGCTTTGAGG
Seq A exon
GTGAGCCCCTGCTGGGGAAGCGGTCAGCCCATGTCCAGATGCCCAGGGAGGGATCTTGTGCCCACCCCCCCACCCCCCCCACCCCCCCACCCCACACCCCACACCCGAGTCTGCCCTCTCTCTTGGACTCAGTCTCTCTAGCTATAGAATGGACCCTCTCAGCCCCTGCCTGGCTCTGAGGGTGCAGGTGGGACCCACAGCTGGGCCTCTTACAG
Seq C2 exon
GAGCCGACTGCGGTGTGGAGGTGGACGAGTGTGCCTCACGGCCATGCCTCAACGGAGGCCACTGCCAGGACCTGCCCAATGGCTTCCAGTGTCACTGCCCAGATGGCTACGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000148204-CRB2:NM_173689:5
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(16.1=7.9),PF126612=hEGF=PU(69.2=14.3)
A:
NA
C2:
PF126612=hEGF=PD(23.1=7.7),PF0000822=EGF=PU(90.3=71.8)
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:
GAGCTGTGCGAGGTGGAC
R:
ATCTGGGCAGTGACACTGGAA
Band lengths:
279-494
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains
- Pre-implantation embryo development
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)