HsaINT0082839 @ hg19
Intron Retention
Gene
ENSG00000160255 | ITGB2
Description
integrin, beta 2 (complement component 3 receptor 3 and 4 subunit) [Source:HGNC Symbol;Acc:6155]
Coordinates
chr21:46321407-46323450:-
Coord C1 exon
chr21:46323280-46323450
Coord A exon
chr21:46321649-46323279
Coord C2 exon
chr21:46321407-46321648
Length
1631 bp
Sequences
Splice sites
5' ss Seq
TTGGTGAGG
5' ss Score
6.9
3' ss Seq
CCCCTCCATGTGCCCTGCAGGCT
3' ss Score
8.87
Exon sequences
Seq C1 exon
GCCAGGCAGCAGCGTTCAACGTGACCTTCCGGCGGGCCAAGGGCTACCCCATCGACCTGTACTATCTGATGGACCTCTCCTACTCCATGCTTGATGACCTCAGGAATGTCAAGAAGCTAGGTGGCGACCTGCTCCGGGCCCTCAACGAGATCACCGAGTCCGGCCGCATTG
Seq A exon
GTGAGGCCCAGGCACTGCAGGACAAAACCCAGTCCTTTCCCAGACCCTGGCCACTCCTGCCTGTGGCCCACACAACTCCTCGCACTCAGGTCCCCAGGGTAGATCTGGGGGCCCCAGATGCAGGTCCCCCCAGGGCATCCACAGGGCTGCAGTCGGCCTGCCTCCCTGCCAGGGGCCACACCCAGTCCCTGGCTCCCCAACACTTGTAGACATTGTCCAGCCCTCCACTTCCCCTTCCATCTTCTACTTCCTTTATTTATTTCTTGGTATGTTTAAAAGACAAAATTCTGACAGTGCCAATTATTAAACATTAAAGACCACAACACATATAGACGGCACAGCGACGGCAGCACTGAAGAAACCACACAGCAAGCTCTGCTGGGCCAAGGGCTCCGCTCTACACCAGCACTGCCTTGCCACAGAGCAGGTCTCCAGCACACGTGTGTGTCAGTCACAGCGCATGTCTTCCCCGCCGGCCGTGGCTTCTCACATCGGCACTCTGCCACCTTCCCTACATGCGGGGATGCACACATGCACGATAACACACACACACACAAGCAAATGCATGCTCACACAAATGCACGCTCACACACAAATGCACGCTCATGCACGTGAATGCACGCTCACACACAAATGCATGTTCACACATGCAATGCACACTCACACACAAATGCATGCTCAAACGCAAATGCACGCTCACACATGCGAATGCACACTCACACATGAATGTATCCTCACATGCACAAATGGATGCTCACACACGCGAATGCATGCTCACACACAAAAGCACACCCAAACTCAAATGCACACACACGTGAATGCATGCTCACACACGTGAATGTATGCTCACACACATGCTCAAACACACAAATGCATGCTCTCACATGTGAATGTATGCTCACACATGAATGTATGCTCACACGCAAATGCATGCTCACACACGCGAATGTATGCTCACATGCACAAATGCACGCTCACACACGTGAATGCACGCTCACACACAAATGCATGCTCACACACATGAATGCATGCTCACACTTGCATGTGCACACACATGCACACACAGTCATACACACGTGCAAGACCACATGTGCACACAGACATGCTCACATGCACACTCATGATCACCCATGTATGTCTTCACTCACATGTATAAATCGTACATAAACACACATGCCCACATATGTACCTGGTCACCTACGTGAACTAGGTGTGTCCATACCTGAACATGCTCACATGCATACAGGAATACGTGCACACACAGTTGTGCTACGCATGTACACACTCATGTTTACACATGCAGATGGCTGCACACACAGATACACATACGCACCTGTTCACATGCCCACATGTATACCTGGTCACACACATACATGCAGGAACACACATGCATACACTTATGCTCATCCATGTACATTGCACACTCCCAGGTTCACACACACGCCCACATACGTTCACATGTGTGCTTGCACAACGCACATGCTCACACACACACTCCACATGTGCCATCTTGCTTTCTCCACCTCCCTGCTAGGAGAGAGGAAACAGGCTTGCCCTCGTGCCCCTTTGAAGCTGGCCCTCCCACCTGGGCCCAGCCTGCCACCTCCCCAGCCCCTCCATGTGCCCTGCAG
Seq C2 exon
GCTTCGGGTCCTTCGTGGACAAGACCGTGCTGCCGTTCGTGAACACGCACCCTGATAAGCTGCGAAACCCATGCCCCAACAAGGAGAAAGAGTGCCAGCCCCCGTTTGCCTTCAGGCACGTGCTGAAGCTGACCAACAACTCCAACCAGTTTCAGACCGAGGTCGGGAAGCAGCTGATTTCCGGAAACCTGGATGCACCCGAGGGTGGGCTGGACGCCATGATGCAGGTCGCCGCCTGCCCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000160255-ITGB2:NM_000211:5
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.001 A=NA C2=0.118
Domain overlap (PFAM):
C1:
PF0036213=Integrin_beta=PD(41.5=96.6)
A:
NA
C2:
PF0036213=Integrin_beta=PD(0.1=0.0),PF0036213=Integrin_beta=FE(27.6=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:
CAGCGTTCAACGTGACCTTCC
R:
TTCCGGAAATCAGCTGCTTCC
Band lengths:
348-1979
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)