HsaINT0041236 @ hg19
Intron Retention
Gene
ENSG00000148204 | CRB2
Description
crumbs homolog 2 (Drosophila) [Source:HGNC Symbol;Acc:18688]
Coordinates
chr9:126136858-126137622:+
Coord C1 exon
chr9:126136858-126136974
Coord A exon
chr9:126136975-126137495
Coord C2 exon
chr9:126137496-126137622
Length
521 bp
Sequences
Splice sites
5' ss Seq
GAGGTGGGT
5' ss Score
7.07
3' ss Seq
CAGCCCCCCTCCCTCTCCAGGTG
3' ss Score
11.68
Exon sequences
Seq C1 exon
GTTGCCTGTCCCATCCAAGGAGTGCAGCCTGAATGTCACCTGCCTCGATGGCAGCCCATGTGAGGGTGGCTCTCCCGCTGCCAACTGCAGCTGCCTGGAGGGTCTTGCTGGCCAGAG
Seq A exon
GTGGGTCTGGGGGCCTGGGAACTGTGAGGAGGTCCAATGAATGTGGAGGGCTGTTCCTCCAGCCAGGGTGGGGCGGGGGTCCTCGCCCACCTTCTCACCCCTCCCTGGTATCACAGTCACCATTGTCACTTGAGTTTCCTTCCATGACTCGCAAGACCATCCTCTGTGATACAGACTGCTGCTGGGCAGTGGTTGCCTGGTGGCAGTTCTGGAAACCCAGCCTCAGCCCGCCTGTGGGAGACCATAAAAGTGCAGATTCTGGGCCCTGCAGACAGTGGCGTCAGCGTCTGGGGCACCTGCCTTCACACAGGCTCCCGTCACCCTAATGGGATGAGAGTCCTTCTCAGTGACGGCTGCTCAGGTGGTCACCTGGCAGGGCCCAGCTGGGCAGGAGCAGCGCATGGGGACAGTGGATGGATAAGCTCTGATGCTTGCTGAAGTGGGGATGGGCAGCAGAGCAGCTGGGAGCACAAGAGGCAGCCATGGGGGAAGCCGCTTTCTCAGCCCCCCTCCCTCTCCAG
Seq C2 exon
GTGTCAGGTCCCCACTCTCCCCTGTGAAGCCAACCCCTGCTTGAATGGGGGCACCTGCCGGGCAGCTGGAGGGGTGTCTGAATGTATCTGCAATGCCAGATTCTCCGGCCAGTTCTGTGAAGTGGCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000148204-CRB2:NM_173689:11
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:
NO
A:
NA
C2:
PF0000822=EGF=WD(100=72.1)
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:
GTTGCCTGTCCCATCCAAGG
R:
TTCACAGAACTGGCCGGAGAA
Band lengths:
238-759
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Genotype-Tissue Expression Project (GTEx)
- 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)