HsaINT0082840 @ hg19
Intron Retention
Gene
ENSG00000160255 | ITGB2
Description
integrin, beta 2 (complement component 3 receptor 3 and 4 subunit) [Source:HGNC Symbol;Acc:6155]
Coordinates
chr21:46320235-46321648:-
Coord C1 exon
chr21:46321407-46321648
Coord A exon
chr21:46320391-46321406
Coord C2 exon
chr21:46320235-46320390
Length
1016 bp
Sequences
Splice sites
5' ss Seq
CCGGTGAGG
5' ss Score
9.35
3' ss Seq
CCCCCACGCCTTCTTCTCAGGAG
3' ss Score
7.89
Exon sequences
Seq C1 exon
GCTTCGGGTCCTTCGTGGACAAGACCGTGCTGCCGTTCGTGAACACGCACCCTGATAAGCTGCGAAACCCATGCCCCAACAAGGAGAAAGAGTGCCAGCCCCCGTTTGCCTTCAGGCACGTGCTGAAGCTGACCAACAACTCCAACCAGTTTCAGACCGAGGTCGGGAAGCAGCTGATTTCCGGAAACCTGGATGCACCCGAGGGTGGGCTGGACGCCATGATGCAGGTCGCCGCCTGCCCG
Seq A exon
GTGAGGCCGCTGCCCCTGCTTGGGTCCCCACGTTCCCCCAGTGTGGGGGGCTCTGTCAGGCGCTGTGTGGGGGCAGGGGGGTACCCTGGCCGGCAGGTCGTCTGAGGGACTCCAGCCTGGGCCTGGGGAGAGCAGCTCCTCACCCTGCTGCTGCCCATGCAGGAAAGGGCAGGAGGAAGGGAGGGTGACCACGAGGGCTCGAAAATCATGCGCTGATTTCATTGTTTGCTGTGAGTTAAATTTGTGACCCTGGGCAAACCTTATGAAGCCTAAACATTTTGCGAGCGGCCAAGGGTGGAACAGGGCCGCTAGGCAGCAGGTCCCGTGGTTCCTGGGGTGGAACCACCCTCCTCCCTCCAGGCCGGGTGGGCGCTGGCTGCCCAGTGTGTGTCGCTCTCCACGTCCCGCCCACCCAGTTTGTGACTGTCAGCCTAACAGAGCAGCCACAGTCCCTGGGCCATGTTGAGGCCACATGCACTGTCCTCCCCTCACAACCCACCTTAGCTCTCCTGCTTCCCTGCAGTCCCAGCGCAGACACACTGCTCACGAGTGTGAGGTCACAGCCTAGGACACGCACGGCCCCCACATGCGCCTGCCAGGGGCTGTCAATGGTGGACTCAAGGCCTGCTGGGCCCCTCAGGCTCGTTTTCCTCCATGTTGCACTCGTTCTGCGTGTGGCCCACACGTCTGCGAGGGTTTTTCCCCTTGGGGATGGTTTCCTGAGGGTTTGTTCCCAGCTCTGAAGTGCAGGGACCGCAGCCGTGTCTCTCTCCTTGCCTTTCCACACGTGCCTCCACTCCCTGCGCCTCACATGTGCACGGGGTGTTTGAGGGCCGTTGTCTCCTCCTGGGCGTGGCGTCTGGGGGAACACAGCTGGGTCCCTGAGACCCAGGGGAAAGGGGGACCCACACCAGCCTCCGGGCCACCCCACCAGCTCTGCATCGTCTCCTCTGCTCCAGAGGGCCGGGTCTGGGAAACTGAGGCAGGTAACCCTGCCCCCCACGCCTTCTTCTCAG
Seq C2 exon
GAGGAAATCGGCTGGCGCAACGTCACGCGGCTGCTGGTGTTTGCCACTGATGACGGCTTCCATTTCGCGGGCGACGGGAAGCTGGGCGCCATCCTGACCCCCAACGACGGCCGCTGTCACCTGGAGGACAACTTGTACAAGAGGAGCAACGAATTC
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000160255-ITGB2:NM_000211:6
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.118 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0036213=Integrin_beta=PD(0.1=0.0),PF0036213=Integrin_beta=FE(27.6=100)
A:
NA
C2:
PF0036213=Integrin_beta=FE(12.3=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:
TGAACACGCACCCTGATAAGC
R:
TGTACAAGTTGTCCTCCAGGTG
Band lengths:
342-1358
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)