HsaINT0082840 @ hg38
Intron Retention
Gene
ENSG00000160255 | ITGB2
Description
integrin subunit beta 2 [Source:HGNC Symbol;Acc:HGNC:6155]
Coordinates
chr21:44900320-44901733:-
Coord C1 exon
chr21:44901492-44901733
Coord A exon
chr21:44900476-44901491
Coord C2 exon
chr21:44900320-44900475
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:ENST00000355153:6
Average complexity
IR
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