HsaINT0082875 @ hg19
Intron Retention
Gene
ENSG00000132470 | ITGB4
Description
integrin, beta 4 [Source:HGNC Symbol;Acc:6158]
Coordinates
chr17:73732646-73733525:+
Coord C1 exon
chr17:73732646-73732775
Coord A exon
chr17:73732776-73733402
Coord C2 exon
chr17:73733403-73733525
Length
627 bp
Sequences
Splice sites
5' ss Seq
GAGGTAGGG
5' ss Score
7.81
3' ss Seq
CTGACTGGCTGTGGGTACAGCCG
3' ss Score
2.83
Exon sequences
Seq C1 exon
ATCCACCCGGGCCTCTGCGAGGACCTACGCTCCTGCGTGCAGTGCCAGGCGTGGGGCACCGGCGAGAAGAAGGGGCGCACGTGTGAGGAATGCAACTTCAAGGTCAAGATGGTGGACGAGCTTAAGAGAG
Seq A exon
GTAGGGGCAGGGGCTGAGGGTTGGGGTTGCTGAGAGCCTAGGCAGCGGGCATCCAACGGGGCAAGGGTGTCATCACCTGGACGGGGGCTTGCAGTCTGGGCTAAGGTCACACAGTCCGGACAGGAACTCCAGAGCTGGGAGGGACCACAGAACCCAGATAGAGGACACCGAATCCCAGAAAAGGGTAAAAGCCTGAGCAGGAGGCACAGAACCCAGGCGGTGGGACACAGTCTGGCCCAGGAAGGGACCAAGAGTCTTGGTGGGAGGCACCTGACTTGGGCAGGGGCATGCACCCAGCAGGGGTACATGGTCACGCTGTGGAGACACGCAGCCTCCCCTCCTCGAGATCAGATACGTTTTCTGGACCCTGAGTTCCTGGGTGATGTCCAGGTCAGGGAAGTGGGGGAGGTAGGTTTCTAGGCTCTGATGCTCCTGAGCAGGGGAGCCCCCACCACACCCGTTCCTGTGCCTGGTGAGAGCACGGCTTTGCAAGGACTTCCACTCTTCCCCAGGAGGCCCTGCCGTGGGTGAGGCAGATCGCAGAGTAGGGGCCCCCTCACCAGACCCTGGGTCCTCTGGGGCGGAGGGGTGTGGCTGGGGTGCCCTGCTGACTGGCTGTGGGTACAG
Seq C2 exon
CCGAGGAGGTGGTGGTGCGCTGCTCCTTCCGGGACGAGGATGACGACTGCACCTACAGCTACACCATGGAAGGTGACGGCGCCCCTGGGCCCAACAGCACTGTCCTGGTGCACAAGAAGAAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000132470-ITGB4:NM_001005619:15
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.003
Domain overlap (PFAM):
C1:
PF079657=Integrin_B_tail=PU(44.2=86.4)
A:
NA
C2:
PF079657=Integrin_B_tail=FE(47.7=100)
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:
CTCTGCGAGGACCTACGCTC
R:
CCTTCTTCTTGTGCACCAGGA
Band lengths:
241-868
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)