HsaINT0082843 @ hg19
Intron Retention
Gene
ENSG00000160255 | ITGB2
Description
integrin, beta 2 (complement component 3 receptor 3 and 4 subunit) [Source:HGNC Symbol;Acc:6155]
Coordinates
chr21:46313319-46314975:-
Coord C1 exon
chr21:46314886-46314975
Coord A exon
chr21:46313460-46314885
Coord C2 exon
chr21:46313319-46313459
Length
1426 bp
Sequences
Splice sites
5' ss Seq
AATGTGAGT
5' ss Score
7.8
3' ss Seq
TAACCGCTCTCTGCCCGCAGAAA
3' ss Score
12.07
Exon sequences
Seq C1 exon
AAACTCACCGAGATCATCCCCAAGTCAGCCGTGGGGGAGCTGTCTGAGGACTCCAGCAATGTGGTCCAACTCATTAAGAATGCTTACAAT
Seq A exon
GTGAGTCTCCCGCACCACTCAGCTGGGACCCATGGGGTGGCCAGCAATCTCCCCACTGCAGGTCAGCTCCTGCTGCAGGTCAGCAGGAGGGTGGTCTGGGAGGAAAGCCCCTGCCCCGTGGGCCAGCTGCAGCCTCCCGACCTGCCCTCAGGCCTCCAGGACACCCTGGCCCGGCACTTCCACGGGGAGCTCTGGGTCCTCTCTCGTTGATGTTGTGGGCGATGCTCCCTGAAACCTGAGCTCCGGACTCTTCATTCCAGACTCTTCTCTGCGGGTCTCTATGGAGAAGGGAGGTGGACAGCTCTGGTGGCAAACAGTGCAGCTGGGGCAGGAGGAGGCCACAGGAAACCCCCACAGTGGACTTGGGCCCTGGGAAGACACCCTGGGGGGTGGAATTCCTCTTGCTCTGTTCACCTGTCCTGGGCAAGCTCCAGAGAAGCCCTTAACCCCTGAATTTCTCCCTGGTGCACGGCCCATCGAGCTGCACCCTGGGCTGCTCCCCTGGGGAGCCCATGGCCCTGGTGGGCATAGGTAGGCATAGGTGCGCACTAGGTGCCATTCAGGGCCCCAGGCACCAGAGGTCCCGACTGCTCTGGAAATCTACCCCCAGGTGAGAGATGTTCTCAGAATTCTGGCCTGGATCCTTCTAGGCCAAAGGTCCTGCTGGCTTGAGGGAGCTCAGCACGTTAGCGCCTCCGACAAACGTTGGGTCATTGAATTAAACTGAAGGCCCGTGGAGGAGGTGCCATTTGCTTCTCGTAGCCTCCCGTGAGCCCCAAACCCCCAGAGCAGACCCTCCTGGGTGCCAGCCACTGCCCGAGGTGTTTCTGTCCTTACACAGAGGATGCAGGTGACGCCACTGCCCTGGCCATTCACCCGATGCCCCTATGAACCTGTCCCTCTGCCTCCTCTCAATTTCCGTCTGTCTCTCAGTCTTTGTCTCTCTTTCTCTGTCTCTCTCTGTCTGTCTCTCTCTGTCTCTGCCCCATCTCTGTCTGTCTCTGTCTCTGCCTCTCTCTGTTTCTCTCCATCTCTCTGTCTCTGGCTCTGGCTCTGCCCATCTCTGTCTGTCTCTGCCTCTCTCTGTTTCTCCCCATCTCTCTTATCGCTTGAACAATTTATGCAGCTCCTGCCCTGTGCTAGGTCCTGGGGACTCAAGGCTGAGGAGCAGCAGAAGCTCCCACCCCTGAGGCTCACACCCTGGCTCCATGCTAGTCCCTGTGGTCAGGCTGTCTCGAGGGCAGGACTGTGGCCCTGGCAGCCCTGCCATCCTCAGCACATCCTGCTGTGCTCTCCTCTGTGTCATTAGCTGACACTGGGGACTTGCACTGAGAGGAGAAGTGGAGACGGGTCTAAACCGCTGGGCCAGGCAGGGCCAGGACAACAGAAACACTCGCCCCCAAGAGTAACCGCTCTCTGCCCGCAG
Seq C2 exon
AAACTCTCCTCCAGGGTCTTCCTGGATCACAACGCCCTCCCCGACACCCTGAAAGTCACCTACGACTCCTTCTGCAGCAATGGAGTGACGCACAGGAACCAGCCCAGAGGTGACTGTGATGGCGTGCAGATCAATGTCCCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000160255-ITGB2:NM_000211:9
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:
PF0036213=Integrin_beta=FE(10.0=100)
A:
NA
C2:
PF0036213=Integrin_beta=FE(11.1=100)
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:
AACTCACCGAGATCATCCCCA
R:
CGGGACATTGATCTGCACGC
Band lengths:
230-1656
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)