HsaINT0082835 @ hg19
Intron Retention
Gene
ENSG00000160255 | ITGB2
Description
integrin, beta 2 (complement component 3 receptor 3 and 4 subunit) [Source:HGNC Symbol;Acc:6155]
Coordinates
chr21:46305868-46306817:-
Coord C1 exon
chr21:46306651-46306817
Coord A exon
chr21:46306346-46306650
Coord C2 exon
chr21:46305868-46306345
Length
305 bp
Sequences
Splice sites
5' ss Seq
AATGTAAGT
5' ss Score
8.62
3' ss Seq
CTGTTTGCATTTCCCACCAGGAT
3' ss Score
10.38
Exon sequences
Seq C1 exon
AGTGTGTGGCAGGCCCCAACATCGCCGCCATCGTCGGGGGCACCGTGGCAGGCATCGTGCTGATCGGCATTCTCCTGCTGGTCATCTGGAAGGCTCTGATCCACCTGAGCGACCTCCGGGAGTACAGGCGCTTTGAGAAGGAGAAGCTCAAGTCCCAGTGGAACAAT
Seq A exon
GTAAGTGGCCGTCCTTGGGGGTCCCACGCAGAGGGGCACGTGCGTCCCACACTATGCGACCTCCTGCTGCGGGAGGCCGTGGACACCCGTGTGTGGCTGCACCCCGGCCTCCCCAGGCAGCTTGTCCTCTGGGCGTCCGCCGCTGTGGGTGAGCTTGGCTGCCGGTGCTGGGACCCTGGGGGGGCTGCCCCACGTCTAGCTCTTCCTCAAAGTGACGGCTTCCATGCGGGGAGTGTCCTCAGGGAGAAAGATTCTGCTCTGAAAACCTCCCACACTCACAAGCCCCTGTTTGCATTTCCCACCAG
Seq C2 exon
GATAATCCCCTTTTCAAGAGCGCCACCACGACGGTCATGAACCCCAAGTTTGCTGAGAGTTAGGAGCACTTGGTGAAGACAAGGCCGTCAGGACCCACCATGTCTGCCCCATCACGCGGCCGAGACATGGCTTGCCACAGCTCTTGAGGATGTCACCAATTAACCAGAAATCCAGTTATTTTCCGCCCTCAAAATGACAGCCATGGCCGGCCGGGTGCTTCTGGGGGCTCGTCGGGGGGACAGCTCCACTCTGACTGGCACAGTCTTTGCATGGAGACTTGAGGAGGGAGGGCTTGAGGTTGGTGAGGTTAGGTGCGTGTTTCCTGTGCAAGTCAGGACATCAGTCTGATTAAAGGTGGTGCCAATTTATTTACATTTAAACTTGTCAGGGTATAAAATGACATCCCATTAATTATATTGTTAATCAATCACGTGTATAGAAAAAAAATAAAACTTCAATACAGGCTGTCCATGGAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000160255-ITGB2:NM_000211:15
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF079657=Integrin_B_tail=PD(7.6=10.7),PF087256=Integrin_b_cyt=PU(54.3=44.6)
A:
NA
C2:
PF087256=Integrin_b_cyt=PD(41.3=90.5)
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:
GGAAGGCTCTGATCCACCTGA
R:
TCTCCATGCAAAGACTGTGCC
Band lengths:
357-662
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)