HsaINT0082893 @ hg19
Intron Retention
Gene
ENSG00000132470 | ITGB4
Description
integrin, beta 4 [Source:HGNC Symbol;Acc:6158]
Coordinates
chr17:73748527-73750896:+
Coord C1 exon
chr17:73748527-73748658
Coord A exon
chr17:73748659-73750656
Coord C2 exon
chr17:73750657-73750896
Length
1998 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGT
5' ss Score
10.1
3' ss Seq
ACCCTGCTCTCCCCCTGCAGAGC
3' ss Score
12.96
Exon sequences
Seq C1 exon
TCCCCATCATCCCTGACATCCCTATCGTGGACGCCCAGAGCGGGGAGGACTACGACAGCTTCCTTATGTACAGCGATGACGTTCTACGCTCTCCATCGGGCAGCCAGAGGCCCAGCGTCTCCGATGACACTG
Seq A exon
GTGAGTGGAGACCTGGGACCCACAAGAGGACAGTGGGGGTCTTGGGTACAGAGTGAGTCCACTGGGTCCAGAGAGGGCAAAGGGGCCAGCAACTAGAGGACATGGAGGTTAAGGCAGCCTTGGACAAATGCAATGGAGTGCACATCTGTGCATGGGGCACAGGAACCAGTGCCTGGGGGACAGACACACACAGCCTTGTGCAAGCGCACATGAGTTCATGCCCACGGGACCACGAAGAAACACAGCTTCACAAGTTGAAGGTTCACCAGCTGTGCCATGCACACAGGACACTCAGGCCACCCCCCAGGGGCAGGCCTGGCCCAGGAGCCCTGGGCAGCCACCAGGCGGCCACCTGGCAGGGGTAGGGGAGCCAAGGAGACAAGAACACCCCCAACAGCTCTGTCCTTCCTCCTTGATTCCCAGCACAAAGTGCTGCGGAGCCCTTAGCTGGGCCTCCTGAGTGCTCAGTGTCAGCTGTGGCTCCACCTGTGGGACATCAGATGAATCACTCATCCTTTCCATGCCTCACTTTTCTGCTCTGTATAATGGGATACCAATCACACAGTACCATGAGTGGAAAAACCTCTGGGGCACGTATATCTTTTGTATTTTCTTCTGTCCCTGCCGATGCCTCAAGCTGCCCCCGGTGAACACATACTGGCCCCCACGGGGCTCAGCTTGGGCTTAAGGAGCCATTTTGAGGGGTTCAGGTGGAGCGCAGCTGGTGTGACTCTGGAACCCCAGCTCAGCTGCTTCTAACACTACCTGCGAAGCGCTCGGTGGCTTGCGGAACGGTCCCTGGGAGGCGGGCAGGGGCAAGATTCCTCTCTCCATTGTACAAACGGGAAACTGAGTCTCGGAGAGGTTAAGTAAAGCAAGGGAGACCTCACAGCTGGTGACAGAGCCCAGACTTCCCCCAGGTTTCTGGCGGGTCCGGGGGTCTCTCCTCCCCAGCTGTGCCGAGGCTGCACTCGCTCATCTGGAAAGGCTTCAGCCGCGCAAGGGTTTCACCTGCCGCGGCCTTCCCGCTCCGGCCGTGCGCATCTACCCCCGCCCCCAACACACACCCCGGGATCCCGGGAGCTGGAGACGGGCTCCCCTCGCAGAGCCTACGGCCTTCCCCCGCCTGGCCCTGCTCGGCCCGGCGCCCCCCGGCGGTGCCAACGCGGCCCTTCGTTGTTCCCAAGGCTGCGGCTGGAAGTTCGAGCCCCTGCTGGGGGAGGAGCTGGACCTGCGGCGCGTCACGTGGCGGCTGCCCCCGGAGCTCATCCCGCGCCTGTCGGCCAGCAGCGGGCGCTCCTCCGACGCCGAGGCGCCCCACGGGCCCCCGGACGACGGCGGCGCGGGCGGGAAGGGCGGCAGCCTGCCCCGCAGTGCGACACCCGGGCCCCCCGGAGGTGACAGGCTCACCCGCCGCCCCCCGATCCGCGCCCACCCAGCCTCACTCGCGCCTGAGGGCCTGGGGTGGGCGTCTGCGCTGCCTCGGGGGCCCCAGTTTCAGCCAGGCCCGGGCCTTGGCGGCTGGGAGCACAGCTGCTCAGAGGCAGGGCCCAGTGCCAGGGGACGCGTGAGGCAGGCGCTTGGGCCCTTATGGTGCCTGCCTGGCCAGGGGGTGCAAATTCAGAAGTCTGCCCGGGAAGCGGACCCTGGCACCCAAGTAGACCCCTCAGGGGCCTCAAAGGACAGGAGGGAAGGCTTGGGGATCTCCCCAGGGCAGAGCTGACTGCAGACGCAGCAAACCCCCGCCACTGCCAGGGTCAGCAGTGCTCACACCGATAGAGTGGCCGGCCAGAGGATATGGGCTGTGGAAGCCTGGGTGGCCCTTGGGCTCCTGCAGGGACAGAGGGCCTCTGTCCCTAGTGGTTTGAGGGAAACTGGTTGTATTTAAGCAAAAGCCACCCAGAGGGTGGGTGACCAGGAATGTGCAGGGCCCAGCCTGCCCCACGGGGCCCGGGTCTGGGGCAGGCCTGACCAAGGGACCCTGCTCTCCCCCTGCAG
Seq C2 exon
AGCACCTGGTGAATGGCCGGATGGACTTTGCCTTCCCGGGCAGCACCAACTCCCTGCACAGGATGACCACGACCAGTGCTGCTGCCTATGGCACCCACCTGAGCCCACACGTGCCCCACCGCGTGCTAAGCACATCCTCCACCCTCACACGGGACTACAACTCACTGACCCGCTCAGAACACTCACACTCGACCACACTGCCCAGGGACTACTCCACCCTCACCTCCGTCTCCTCCCACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000132470-ITGB4:NM_001005619:31
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.422 A=NA C2=0.872
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCCCCATCATCCCTGACATCC
R:
GAGGTGAGGGTGGAGTAGTCC
Band lengths:
358-2356
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)