HsaINT0082830 @ hg19
Intron Retention
Gene
ENSG00000160255 | ITGB2
Description
integrin, beta 2 (complement component 3 receptor 3 and 4 subunit) [Source:HGNC Symbol;Acc:6155]
Coordinates
chr21:46311724-46313459:-
Coord C1 exon
chr21:46313319-46313459
Coord A exon
chr21:46311912-46313318
Coord C2 exon
chr21:46311724-46311911
Length
1407 bp
Sequences
Splice sites
5' ss Seq
CCGGTGAGC
5' ss Score
8.69
3' ss Seq
AGCCCAGCACTGCCCTGCAGATC
3' ss Score
3.95
Exon sequences
Seq C1 exon
AAACTCTCCTCCAGGGTCTTCCTGGATCACAACGCCCTCCCCGACACCCTGAAAGTCACCTACGACTCCTTCTGCAGCAATGGAGTGACGCACAGGAACCAGCCCAGAGGTGACTGTGATGGCGTGCAGATCAATGTCCCG
Seq A exon
GTGAGCCTGGCCACAAGGGTCCCCATCCCAGCTTGCTGAGGGGCTCTGGGGACAGCCAGAAGGAGCCAGGGTCCCCATCCCAGCACACTGAGGGGTCCTGGGGACAGCCAGAAGGAGCCAGGGTCCCCATCCCAGCACTCTGACGGGGGCAGGGAGGGGCACACAGGCATCAGAGGCTGTCTGGGAGCAGGCAGCATCCACTGGAAGGACCCTGTTTCTTTCCTTCACATCCTCTCTGCCGAGGCCAGACGCTTTCCTTGTGAAGCTGATGTCAGGAACGTCAGTGAGAGGGTGCCGAGAGGGTGCTTCTCAGTGAGAGGGTGCTGGGAGGGTTCTTCACACACGCCTTGGCCCCCAAGAGTCCTACTCATCAACCTGGAGCCCAAATCCCTGGGTCAGGCCACTGCAGACTGAGGGATGGAGTGATGGCTGCGCCCCCTGGGGGCAGACGCCGGACACACAGAACAGGCGCAAACGGCAAACCTGGGTAGGGTTAGTTGTCATGATTTTCTGCGTGTTTCATTCTGTTTTTTTGACAGAAACATTAAGGCATGGGCCACACAGGTGGTTAGGAATGGACACTGAGTTCCTTCTCTAATCTTTCAGGTTTAAGTTTATTATCCAATCATTTGTTGTTTCTTTTTGTTTTTTGTTTTTTGTTTTTTTTTTTGCTAGCTGTGAAATAATATTCAGCAAGACACTTGCTTTCATTGCATTTTCTTAATATGACTTTGGAATTCCTTCAAACATGTTTCTTGGTAAATGTTGCCTGTGGATTTTTTTTTTTTTTTTTTTTTTTGAGATGGAGTTTCGCTCTGTCGCCCAGGCTGGAGTGCACTGGTGCGATCTTGGCTCACTACAATCCAAGTGATTCTCCTGACTCAGCCTCCTGAGTAGCTGGGACTACAGGCGTGTGCCACCACGCTCGGCTAATTTTTGTATTTTTAGTAGAGACAGAGTTTCGCCATGTTGGCCAGGCTGGTCTCAAACTCTTGCCCTCAGATGATCTACCCGCCTCGGCCTCCCACAGTGCTGGGATTACAGGCGTGAGCCGCGGCGCCCAGCTGTCCCATGGATTCTCACCAGAACGTTTCCCTCATGTTGGGTGGTCTGAGTGGGAGTGTGCTCAGCTTCTCCTGATTTGCTGTCTGCGTGTCACATGTCTCTGCTGATGTGTGGCCGGGGAGATCCTGGTGCCGGCCAGTGCGGGAGTGCGGGCAGAGCACCTCCTTGCCGGCTGACTTTGGCTCTCGGATCTGAGCATCAGCTCTTCCTGCTCCTGGTCACCCCTTCCTCCCCACGCTGAACCCCCCAGGACCCCTGCAGAGGCCAGGAGGTGAGGGTTGGGAGCTGGGCTGCCACCCTGGCCACCGAGGGTCCCCACCTGAGCCCAGCACTGCCCTGCAG
Seq C2 exon
ATCACCTTCCAGGTGAAGGTCACGGCCACAGAGTGCATCCAGGAGCAGTCGTTTGTCATCCGGGCGCTGGGCTTCACGGACATAGTGACCGTGCAGGTTCTTCCCCAGTGTGAGTGCCGGTGCCGGGACCAGAGCAGAGACCGCAGCCTCTGCCATGGCAAGGGCTTCTTGGAGTGCGGCATCTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000160255-ITGB2:NM_000211:10
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(11.1=100)
A:
NA
C2:
PF0036213=Integrin_beta=PD(13.1=60.3),PF126612=hEGF=PU(15.4=3.2)
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:
AAACTCTCCTCCAGGGTCTTCC
R:
CAGATGCCGCACTCCAAGAAG
Band lengths:
326-1733
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)