HsaINT0082894 @ hg38
Intron Retention
Gene
ENSG00000132470 | ITGB4
Description
integrin subunit beta 4 [Source:HGNC Symbol;Acc:HGNC:6158]
Coordinates
chr17:75754576-75755850:+
Coord C1 exon
chr17:75754576-75754815
Coord A exon
chr17:75754816-75755700
Coord C2 exon
chr17:75755701-75755850
Length
885 bp
Sequences
Splice sites
5' ss Seq
ACGGTGAGT
5' ss Score
11.45
3' ss Seq
CTGCGGCCTCCTGTCCCCAGACT
3' ss Score
10.26
Exon sequences
Seq C1 exon
AGCACCTGGTGAATGGCCGGATGGACTTTGCCTTCCCGGGCAGCACCAACTCCCTGCACAGGATGACCACGACCAGTGCTGCTGCCTATGGCACCCACCTGAGCCCACACGTGCCCCACCGCGTGCTAAGCACATCCTCCACCCTCACACGGGACTACAACTCACTGACCCGCTCAGAACACTCACACTCGACCACACTGCCCAGGGACTACTCCACCCTCACCTCCGTCTCCTCCCACG
Seq A exon
GTGAGTGACCTCAGCCAACCCTGCCTCTCCCACTAACCCTTCCTCTCTTCCAGCTCCTGGAGCCTCGGGCTTCTGTCTGCTGTCCCCACCGCCCATTCTCCAACATACACACACGCATGCACACATGCACGCACACACGTGCACACGCATGCACACATGTACACAGACATGCATGCGCACACGTACACACATGCATGCACACTCCCTGCTCCTCTCACTCTTGTTTTGTCCTGCCCTAGGCCTCCCTCCCATCTGGGAACACGGGAGGAGCAGGCTTCCGCTGTCCTGGGCCCTGGGGTCCCGGAGTCGGGCTCAGATGAAAGGGTTCCCCCCTTCCAGGGGCCCACGAGACTCTATAATCCTGGCTGGGAGGCCAGCAGCGCCCTCCTGGGGCCCAGGTAGTACAGGGGTGGCCATCCTGTCTCCACAGCTGTCCTGCTCCATCTGTCATCCAGCCACCATAGCAGCCGCCAGCTGTGCCCACTGCTTCCCCTCCATTCCATCCACAGGACCCCCGCCTGCCCACAGGCGCTAACCACCTGCCCTACCATCAGTGCTGATGCCTAACTCTGCCTCTGCCCTCCCAGGGGGCGGGGCTGGGGCTGGGGCAGGAGAGGGGCCAGGCCAGCTGAGCAGTTGAGGGGGTGGGGCTGGCAGACTCACGGGGCTCACTCTCTTTTGGCACAAGCAGGGCCTGCACCCTGCTGGAGGATGTGCGGTAGGTGCTGGGCAGCCTGGACAGGGTGTTGCAGGGTGAGTGAGTTGTCCAGCCAGCGGTCAGTGTAGACATGCCAGCTGAGGGAGGGAGGTCAGGGGGCAGCACTGTGACTCCCACTGAGACCCTAGCCCCTGCATCTCTGGCTGACTGCGGCCTCCTGTCCCCAG
Seq C2 exon
ACTCTCGCCTGACTGCTGGTGTGCCCGACACGCCCACCCGCCTGGTGTTCTCTGCCCTGGGGCCCACATCTCTCAGAGTGAGCTGGCAGGAGCCGCGGTGCGAGCGGCCGCTGCAGGGCTACAGTGTGGAGTACCAGCTGCTGAACGGCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000132470:ENST00000200181:34
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.855 A=NA C2=0.235
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0004116=fn3=PU(48.8=80.4)
Main Inclusion Isoform:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GATGGACTTTGCCTTCCCGG
R:
GGTACTCCACACTGTAGCCCT
Band lengths:
356-1241
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