HsaINT0082858 @ hg38
Intron Retention
Gene
ENSG00000259207 | ITGB3
Description
integrin subunit beta 3 [Source:HGNC Symbol;Acc:HGNC:6156]
Coordinates
chr17:47290954-47292568:+
Coord C1 exon
chr17:47290954-47291088
Coord A exon
chr17:47291089-47292138
Coord C2 exon
chr17:47292139-47292568
Length
1050 bp
Sequences
Splice sites
5' ss Seq
ACGGTGAGG
5' ss Score
9.2
3' ss Seq
CAATCTTTCTTTCCATCCAGGTG
3' ss Score
11.08
Exon sequences
Seq C1 exon
AAAATCCGTTCTAAAGTAGAGCTGGAAGTGCGTGACCTCCCTGAAGAGTTGTCTCTATCCTTCAATGCCACCTGCCTCAACAATGAGGTCATCCCTGGCCTCAAGTCTTGTATGGGACTCAAGATTGGAGACACG
Seq A exon
GTGAGGTGGGCTGGGCAGGGCCTTTGTCCTGGAGCATCTGTGGGCACCCAACCCCCTTTCTTCCTTTTGTAGTGACTAAAAATGGCCCCCTTCCACCAGAAAAAAAATATGGGCAAGAAAAATACGTTTCCTGAAAGTCATTCTAAGTTAGATGTAATGGATCCACCAATCTTTTCCTCTGAGGCTTCTGTTGCGTAAGCCATTTCTGTTACGTGAACTTCACTCTCAGGAATTTGAAAAACTTACAATTTGGTTACCTTTGTTTGTGTATGCACAGTTGATTGCAAAGGAAAATATTTCTTTACCTTCAGTCCCTCACCAGTCGCCAGCCTTTCCAAGGTAATTAATACCTTTCTTTTGTAAAACGACACAAGAAAGTAAAATCTAAAATGTAAAACACTCCAGTCTCTCCACGACTTTCCTTATTGGTCGTTTCTCCTCCGCTTCTGCCTAAGGGGAGAGGGGTTGGTGGGAGGGGAGGAAGGAGGGGAAGAAAATAGATCTTTGGATACGCTGATCCTTTCTATTGACCTATCTGTCTCTCAGGCACTTGTGCAAACATCCCATGTTAGAAATATTGTCCTGAAACATGCTTTATTGCATAAGCTATGAAATGTGTGGGAACTGAAGTAGATCCTGAGCTTATGATTGACCACCATGTGGGATTGTGTGGTGCAAAATAGTGCTTTGTGCATCTTGCTGATAATTATAATCAGGCCAAAGCAGGGTGTTTATATGATCACAGGTTCTGTTCAGTTTGAGCTGGTCTATTTCATATGTGGAGTGAAAAAACAGCCTTTTATTATTTATTGACTGTAAACCATGTCTCTGCATCCAGCTAGATATGTCACAACGATACTATTCCCGTGCTTGTGTTTTTGCTTTGCAGACCTTCATATAGGGAAGGCTGAGGAACTCCAGATTGCAAAAGCATAAGACACCCAATTTGGGTATTCCTTGGCAGGGCAGGGAACAACTTTTTTTTTCCTCCAGAGCTGGAGTGTTAACTGGGCCCAACTGTGTCTAAATACAATCTTTCTTTCCATCCAG
Seq C2 exon
GTGAGCTTCAGCATTGAGGCCAAGGTGCGAGGCTGTCCCCAGGAGAAGGAGAAGTCCTTTACCATAAAGCCCGTGGGCTTCAAGGACAGCCTGATCGTCCAGGTCACCTTTGATTGTGACTGTGCCTGCCAGGCCCAAGCTGAACCTAATAGCCATCGCTGCAACAATGGCAATGGGACCTTTGAGTGTGGGGTATGCCGTTGTGGGCCTGGCTGGCTGGGATCCCAGTGTGAGTGCTCAGAGGAGGACTATCGCCCTTCCCAGCAGGACGAATGCAGCCCCCGGGAGGGTCAGCCCGTCTGCAGCCAGCGGGGCGAGTGCCTCTGTGGTCAATGTGTCTGCCACAGCAGTGACTTTGGCAAGATCACGGGCAAGTACTGCGAGTGTGACGACTTCTCCTGTGTCCGCTACAAGGGGGAGATGTGCTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000259207:ENST00000559488:9
Average complexity
IR
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=PD(12.9=72.5)
A:
NA
C2:
PF0036213=Integrin_beta=PD(9.4=27.8),PF079748=EGF_2=WD(100=25.0),PF079748=EGF_2=PU(32.3=6.9)
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CGTGACCTCCCTGAAGAGTTG
R:
AGTCCTCCTCTGAGCACTCAC
Band lengths:
355-1405
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