HsaINT0082875 @ hg38
Intron Retention
Gene
ENSG00000132470 | ITGB4
Description
integrin subunit beta 4 [Source:HGNC Symbol;Acc:HGNC:6158]
Coordinates
chr17:75736565-75737444:+
Coord C1 exon
chr17:75736565-75736694
Coord A exon
chr17:75736695-75737321
Coord C2 exon
chr17:75737322-75737444
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:ENST00000200181:16
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
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 Inclusion Isoforms:
NA
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