HsaINT0041239 @ hg19
Intron Retention
Gene
ENSG00000148204 | CRB2
Description
crumbs homolog 2 (Drosophila) [Source:HGNC Symbol;Acc:18688]
Coordinates
chr9:126128196-126128645:+
Coord C1 exon
chr9:126128196-126128391
Coord A exon
chr9:126128392-126128505
Coord C2 exon
chr9:126128506-126128645
Length
114 bp
Sequences
Splice sites
5' ss Seq
CGGGTGAGC
5' ss Score
8.19
3' ss Seq
CGCCGGTGCGCCCTCCCCAGGTT
3' ss Score
8.2
Exon sequences
Seq C1 exon
GCGTGACCTGCGAGATGGAGGTGGACGAGTGCGCCTCAGCGCCCTGCCTGCACGGGGGCTCGTGCCTGGACGGCGTGGGCTCCTTCCGCTGTGTGTGCGCGCCAGGCTACGGGGGCACCCGTTGCCAGCTGGACCTCGACGAGTGCCAGAGCCAGCCGTGCGCACATGGGGGCACGTGCCACGACCTGGTCAACGG
Seq A exon
GTGAGCGAGCGGCGGGGCAGGCGGCAGGGGCGCCGGGTGCCCGAGGGCGGGGAGGCCAGGCGCGGGGCAGAAGGGGCAGGCGCGCGCTCAGCTCCGCCGGTGCGCCCTCCCCAG
Seq C2 exon
GTTCCGGTGCGACTGCGCGGGCACCGGCTACGAGGGCACGCACTGCGAGCGGGAGGTGCTGGAGTGCGCATCGGCGCCCTGCGAGCACAACGCGTCCTGCCTCGAGGGCCTCGGGAGCTTCCGCTGCCTCTGTTGGCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000148204-CRB2:NM_173689:3
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(6.5=3.0),PF0000822=EGF=WD(100=47.0),PF0000822=EGF=PU(53.1=25.8)
A:
NA
C2:
PF0000822=EGF=PD(43.8=29.2),PF0000822=EGF=PU(80.6=52.1)
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:
CTCCTTCCGCTGTGTGTGC
R:
CCAACAGAGGCAGCGGAAG
Band lengths:
253-367
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)