HsaINT0082896 @ hg38
Intron Retention
Gene
ENSG00000132470 | ITGB4
Description
integrin subunit beta 4 [Source:HGNC Symbol;Acc:HGNC:6158]
Coordinates
chr17:75755701-75756617:+
Coord C1 exon
chr17:75755701-75755850
Coord A exon
chr17:75755851-75756428
Coord C2 exon
chr17:75756429-75756617
Length
578 bp
Sequences
Splice sites
5' ss Seq
GCGGTGAGG
5' ss Score
7.93
3' ss Seq
CCCCCACCTGATCCCCCCAGGTG
3' ss Score
9.2
Exon sequences
Seq C1 exon
ACTCTCGCCTGACTGCTGGTGTGCCCGACACGCCCACCCGCCTGGTGTTCTCTGCCCTGGGGCCCACATCTCTCAGAGTGAGCTGGCAGGAGCCGCGGTGCGAGCGGCCGCTGCAGGGCTACAGTGTGGAGTACCAGCTGCTGAACGGCG
Seq A exon
GTGAGGCATGGTGGCTGCCAGGCTGCGGGGTGCAGCCCTGCAAGGCCTGGCCCCAGTGTGACACATAGGGTACCTCAGCTGTGTCAGGAACCCACCCAAGTCCCTTGAGCGCTAAAGCCCCCATCCAGCCTGAGAGGGTCTCCCACCCCATTCTCCACCCCACTTCTTTGCCTCCCCTCTTCTGAGGTCTCACCCACCTCCCTGGGCCTCTCTCCTGGTCATTCTCTGCTAGGTTTTGCCTAACAAGGCCCCTTTGGGCTGGGATCCTAGGGCCTCTGCTGGCCTGAGATGCCTTTGGGGGAACAAGGAAGTGGCACTTCCCTGGGCAGGCACATTCAAAGCAGCATGACCAGGATGCAGGATGTTGCCTAAACATGAGTGGGATTACAGGCTCCACTCTTGTATAGTACACAATCTGAACAACCAGCCATACCATACTGTACCCAACCTGTACCCAAACCACAGCTAGTCCTGGGTGGGTGATAACTAGGTCTCGATGGCAGCTTAGGGACGAGGAGGATCAGGCCAGGGGTGGGAGTAACACTGCACTACTGTGTGCCCCCACCTGATCCCCCCAG
Seq C2 exon
GTGAGCTGCATCGGCTCAACATCCCCAACCCTGCCCAGACCTCGGTGGTGGTGGAAGACCTCCTGCCCAACCACTCCTACGTGTTCCGCGTGCGGGCCCAGAGCCAGGAAGGCTGGGGCCGAGAGCGTGAGGGTGTCATCACCATTGAATCCCAGGTGCACCCGCAGAGCCCACTGTGTCCCCTGCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000132470:ENST00000200181:35
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.235 A=NA C2=0.305
Domain overlap (PFAM):
C1:
PF0004116=fn3=PU(48.8=80.4)
A:
NA
C2:
PF0004116=fn3=PD(50.0=65.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACTCTCGCCTGACTGCTGG
R:
AGGGGACACAGTGGGCTC
Band lengths:
334-912
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