HsaINT0082868 @ hg19
Intron Retention
Gene
ENSG00000132470 | ITGB4
Description
integrin, beta 4 [Source:HGNC Symbol;Acc:6158]
Coordinates
chr17:73749846-73750896:+
Coord C1 exon
chr17:73749846-73750055
Coord A exon
chr17:73750056-73750656
Coord C2 exon
chr17:73750657-73750896
Length
601 bp
Sequences
Splice sites
5' ss Seq
GAGGTGACA
5' ss Score
3.85
3' ss Seq
ACCCTGCTCTCCCCCTGCAGAGC
3' ss Score
12.96
Exon sequences
Seq C1 exon
GCTGCGGCTGGAAGTTCGAGCCCCTGCTGGGGGAGGAGCTGGACCTGCGGCGCGTCACGTGGCGGCTGCCCCCGGAGCTCATCCCGCGCCTGTCGGCCAGCAGCGGGCGCTCCTCCGACGCCGAGGCGCCCCACGGGCCCCCGGACGACGGCGGCGCGGGCGGGAAGGGCGGCAGCCTGCCCCGCAGTGCGACACCCGGGCCCCCCGGAG
Seq A exon
GTGACAGGCTCACCCGCCGCCCCCCGATCCGCGCCCACCCAGCCTCACTCGCGCCTGAGGGCCTGGGGTGGGCGTCTGCGCTGCCTCGGGGGCCCCAGTTTCAGCCAGGCCCGGGCCTTGGCGGCTGGGAGCACAGCTGCTCAGAGGCAGGGCCCAGTGCCAGGGGACGCGTGAGGCAGGCGCTTGGGCCCTTATGGTGCCTGCCTGGCCAGGGGGTGCAAATTCAGAAGTCTGCCCGGGAAGCGGACCCTGGCACCCAAGTAGACCCCTCAGGGGCCTCAAAGGACAGGAGGGAAGGCTTGGGGATCTCCCCAGGGCAGAGCTGACTGCAGACGCAGCAAACCCCCGCCACTGCCAGGGTCAGCAGTGCTCACACCGATAGAGTGGCCGGCCAGAGGATATGGGCTGTGGAAGCCTGGGTGGCCCTTGGGCTCCTGCAGGGACAGAGGGCCTCTGTCCCTAGTGGTTTGAGGGAAACTGGTTGTATTTAAGCAAAAGCCACCCAGAGGGTGGGTGACCAGGAATGTGCAGGGCCCAGCCTGCCCCACGGGGCCCGGGTCTGGGGCAGGCCTGACCAAGGGACCCTGCTCTCCCCCTGCAG
Seq C2 exon
AGCACCTGGTGAATGGCCGGATGGACTTTGCCTTCCCGGGCAGCACCAACTCCCTGCACAGGATGACCACGACCAGTGCTGCTGCCTATGGCACCCACCTGAGCCCACACGTGCCCCACCGCGTGCTAAGCACATCCTCCACCCTCACACGGGACTACAACTCACTGACCCGCTCAGAACACTCACACTCGACCACACTGCCCAGGGACTACTCCACCCTCACCTCCGTCTCCTCCCACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000132470-ITGB4:NM_000213:33
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.676 A=NA C2=0.872
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGCGGCTGGAAGTTCGAG
R:
TGAGGGTGGAGGATGTGCTTA
Band lengths:
356-957
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
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)