HsaINT0082436 @ hg38
Intron Retention
Gene
ENSG00000005884 | ITGA3
Description
integrin subunit alpha 3 [Source:HGNC Symbol;Acc:HGNC:6139]
Coordinates
chr17:50070844-50071518:+
Coord C1 exon
chr17:50070844-50070930
Coord A exon
chr17:50070931-50071310
Coord C2 exon
chr17:50071311-50071518
Length
380 bp
Sequences
Splice sites
5' ss Seq
TTGGTGAGT
5' ss Score
9.27
3' ss Seq
ACATCTTCCCTCTATCCCAGGGT
3' ss Score
9.39
Exon sequences
Seq C1 exon
GAAACAGCTACATGATTCAGCGCAAGGAGTGGGACTTATCTGAGTATAGTTACAAGGACCCAGAGGACCAAGGAAACCTCTATATTG
Seq A exon
GTGAGTACAGTAGTGGTAGCCCATCAAGTGGTAGAGGGGAAGGGGGCTTAGTCCCTGGTGGAAAGGTGAGGCCAGAGTGCAGTTGTGACTAATGGCATTTAGTTAAACTAGCACACACGGATTGGCCGGCACCTGTATGCCAGGCCCTGTTCCAAGCTCCCAAGATGCAAAGTTCTTGACTTCAGGATGCTCACAGTCCAGTGTCCAGGCAGAACTGGGCCATGGCTGCTGGCCATCTGGAGTCTACTTTCTTGCCCTACTTGGAATAGTGGGATAGAACATCATGGTGGGGGGCAAGAGAGGGAATAGGGAGATGGGTCCAGAGTAGAAAGAGACGAAGTTGACTGGGACCTTGGTTGAACATCTTCCCTCTATCCCAG
Seq C2 exon
GGTACACGATGCAGGTAGGCAGCTTCATCCTGCACCCCAAAAACATCACCATTGTGACAGGTGCCCCACGGCACCGACATATGGGCGCGGTGTTCTTGCTGAGCCAGGAGGCAGGCGGAGACCTGCGGAGGAGGCAGGTGCTGGAGGGCTCGCAGGTGGGCGCCTATTTTGGCAGCGCCATTGCCCTGGCAGACCTGAACAATGATGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000005884:ENST00000320031:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.025 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF135171=VCBS=PU(6.7=7.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Cow
(bosTau6)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AAACAGCTACATGATTCAGCGC
R:
CCATCATTGTTCAGGTCTGCCA
Band lengths:
294-674
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