HsaINT0082836 @ hg19
Intron Retention
Gene
ENSG00000160255 | ITGB2
Description
integrin, beta 2 (complement component 3 receptor 3 and 4 subunit) [Source:HGNC Symbol;Acc:6155]
Coordinates
chr21:46330199-46330700:-
Coord C1 exon
chr21:46330640-46330700
Coord A exon
chr21:46330288-46330639
Coord C2 exon
chr21:46330199-46330287
Length
352 bp
Sequences
Splice sites
5' ss Seq
GCGGTGAGT
5' ss Score
10.49
3' ss Seq
CAGCCGGCCTCGTCCCTCAGTCC
3' ss Score
5.18
Exon sequences
Seq C1 exon
GACATGCTGGGCCTGCGCCCCCCACTGCTCGCCCTGGTGGGGCTGCTCTCCCTCGGGTGCG
Seq A exon
GTGAGTTCTGTGTTCCACGGAGGGGACTCCACGCGTGACATTCCAATCAGGGAGAACAGGGCCTGCCCTCACTTTCCCATAGACAGAAGTTCCCGGGAGGCTGGGGAAGGACCTTGCCACTGGGGGTAGGTCGGGGACTCAGGCCTCGTCTCCGCACGTGCCAGGAGGCTGTAGCTGTGCTGTTTCCCGAGGGCCCCTCTTTGCACCTGGGGGTGGTGGCGAATGCGGGGTCTCCTCCTGGAGGCTGCCTCCCTGTCTTTTTGGGCCTCCTCTGACCTTCCTGCTCTACTCCCCCTTGGGTGTGGGCAGGGCGGCCCAGAGCACCCACTCACCAGCCGGCCTCGTCCCTCAG
Seq C2 exon
TCCTCTCTCAGGAGTGCACGAAGTTCAAGGTCAGCAGCTGCCGGGAATGCATCGAGTCGGGGCCCGGCTGCACCTGGTGCCAGAAGCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000160255-ITGB2:NM_000211:2
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.027
Domain overlap (PFAM):
C1:
PF0143720=PSI=PU(3.2=5.0)
A:
NA
C2:
PF0143720=PSI=PU(83.3=83.3),PF0036213=Integrin_beta=PU(35.4=56.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
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)