HsaINT0041244 @ hg19
Intron Retention
Gene
ENSG00000148204 | CRB2
Description
crumbs homolog 2 (Drosophila) [Source:HGNC Symbol;Acc:18688]
Coordinates
chr9:126133349-126134621:+
Coord C1 exon
chr9:126133349-126133857
Coord A exon
chr9:126133858-126134455
Coord C2 exon
chr9:126134456-126134621
Length
598 bp
Sequences
Splice sites
5' ss Seq
AGTGTAAGT
5' ss Score
8.46
3' ss Seq
CTGCCCTGCCTCTCCCACAGCCT
3' ss Score
9.89
Exon sequences
Seq C1 exon
AGATTCCTGCTGCCACCTTTGGCTTGGGAGGCGCCCCAAGCTCTGCCTCCTTTCTGCTCCAAGAGCTGCCAGGTCCCAACCTCACAGTGTCTTTCCTTCTCCGCACTCGGGAGTCCGCTGGCCTGTTGCTCCAGTTTGCCAATGACTCCGCAGCTGGCCTAACAGTATTCCTGAGTGAGGGTCGGATCCGGGCTGAGGTGCCGGGCAGTCCTGCTGTAGTGCTCCCTGGGCGCTGGGATGATGGGCTCCGTCACCTGGTGATGCTCAGCTTCGGGCCTGACCAGCTGCAGGACCTGGGGCAGCACGTGCACGTGGGTGGGAGGCTCCTTGCTGCCGACAGCCAGCCCTGGGGTGGGCCCTTCCGAGGCTGCCTCCAGGACCTGCGACTCGATGGCTGCCACCTCCCCTTCTTTCCTCTGCCACTGGATAACTCAAGCCAGCCCAGCGAGCTCGGCGGCAGGCAGTCCTGGAACCTCACTGCGGGCTGCGTCTCCGAGGACATGTGCAGT
Seq A exon
GTAAGTGTCTGGTGGCGGTGGTGGTGGTGGGGTGGGGAGTCCTTTTCCCAGGATCTGTCCTGTGTCACCGGGGCTTAGTGTGTCCTTTTGCTGATGAGGAAACTGAGGCTCAGGAGGTGAAGTGACCTGCCCAGGGTCCCACTACAGGAGGGTGGCAGGGCAGATTTACATCTGTCTCTTCAGCCCAGCTGCTCCTACCCTCTGGCGGTCCCCGTGTCTCCCCGAGCTAGTCCTGGTGTGAGAGAGACACCCTGACCGAGATAGAGAGCTGCCTGAGCCTTTCTGCAGGAGCTACTTGGGGAGCGGGACACGCTTTTGATCATGAACAGAATTCCACCAACCCTGGAGTTAGAACAGCTTGGGCATGAATTCTGGTTCCTCTCTTTACTGGCTGGGTGACTCAGGCAAGTGGCTTTGCATCACTGAGCCTCAGTTTTCTCATCTGTAAAATGGGGATCTTAGCGACTTCCTCTCCCCTCGTTTGTGAGGAGATACTGTGTCTGTAGTAGGTGCTCAGCGAAGAAGCACTGCAATGCCAGTTATGGTGGGTGATGCTCACTGCAGTCCTGAGCCAACCCCTGCCCTGCCTCTCCCACAG
Seq C2 exon
CCTGACCCCTGTTTCAATGGTGGGACTTGCCTCGTCACCTGGAATGACTTCCACTGTACCTGCCCTGCCAATTTCACGGGGCCTACGTGTGCCCAGCAGCTGTGGTGTCCCGGCCAGCCCTGTCTCCCACCTGCCACGTGTGAGGAGGTCCCTGATGGCTTTGTGT
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000148204-CRB2:NM_173689:8
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.018 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0000822=EGF=PU(3.2=0.6)
A:
NA
C2:
PF0000822=EGF=PD(90.3=50.0)
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:
TCCTGCTGTAGTGCTCCCTG
R:
CATTCCAGGTGACGAGGCAAG
Band lengths:
347-945
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)