HsaINT0082436 @ hg19
Intron Retention
Gene
ENSG00000005884 | ITGA3
Description
integrin, alpha 3 (antigen CD49C, alpha 3 subunit of VLA-3 receptor) [Source:HGNC Symbol;Acc:6139]
Coordinates
chr17:48148208-48148882:+
Coord C1 exon
chr17:48148208-48148294
Coord A exon
chr17:48148295-48148674
Coord C2 exon
chr17:48148675-48148882
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-ITGA3:NM_002204:5
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.022 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
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
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
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)