HsaINT0082433 @ 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
chr17:48165589-48167849:+
Coord C1 exon
chr17:48165589-48165730
Coord A exon
chr17:48165731-48166473
Coord C2 exon
chr17:48166474-48167849
Length
743 bp
Sequences
Splice sites
5' ss Seq
TGGGTAACA
5' ss Score
3.35
3' ss Seq
TCTTCTCCCTCCAACTCCAGTGT
3' ss Score
8.4
Exon sequences
Seq C1 exon
TGCGGCTTCTTCAAGCGAGCCCGCACTCGCGCCCTGTATGAAGCTAAGAGGCAGAAGGCGGAGATGAAGAGCCAGCCGTCAGAGACAGAGAGGCTGACCGACGACTACTGAGGGGGCAGCCCCCCGCCCCCGGCCCACCTGG
Seq A exon
GTAACACGGCCTCCGGGCCCCCTTCCCCGAGCCCCACAGCTGGCCGGGCCTCTGACTCTGTCCTATCTGCTCCTCTTCCCTTATGGGCCTGCTCTGACCTCATTCTGTCCCCACCACCACCCCAAAGATCAGGTCACTCTGACTGTCCCTCCAGCCCCCTGGGTGTCTGGCTTTCATCAGCCTCCCCCTAAGCCCCTTGGTGACTTGGGACCCCATGAGGGAGGCATAAATCCTCTCTGTGATGACCTTGCTTTCTGGGGATTGGAACAAGGTCAAGGGCAAGGCCAGGCCCCATCTCTGTAAACCACAGCCATGTCCAGAATAATTCTACACTCCCATTTCCACCCCTAGGGAAGGAGGGGAGCAGTAGAGACCCTCCTCCTGGGAACTAGCCTGTTTCCTCCTGAGCAACCCTTCCAGGATAACAAATGGACCCATTCCCAACATTGTGGTCAGGGTAGACTGCCCAGTCTTCCTGGCCATTCCATCCACTGTCTCTGCAGCTGCCCTCGGTCTCCATCTGCCTCTTCCTCTGCTCTCTGCCTTCCTCAACTCCTTCTTCCTCTGGGGCCTGGGGTGGAGAAACTCATCCTCCGTATCTCAGTGCAGAGAGATGGGATGCGTTTCGGTCAAGAGTTCTGGCTTTGAGGAGTTCTGGGTGGGAGAGGGAGAGGCCTGGCACTCCTTCCTGGTGGCTCAAACTCTGGATGCTAATGTTCTTTCTCTTCTCCCTCCAACTCCAG
Seq C2 exon
TGTGACTTCTTTAAGCGGACCCGCTATTATCAGATCATGCCCAAGTACCACGCAGTGCGGATCCGGGAGGAGGAGCGCTACCCACCTCCAGGGAGCACCCTGCCCACCAAGAAGCACTGGGTGACCAGCTGGCAGACTCGGGACCAATACTACTGACGTCCTCCCTGATCCCACCCCCTCCTCCCCCAGTGTCCCCTTTCTTCCTATTTATCATAAGTTATGCCTCTGACAGTCCACAGGGGCCACCACCTTTGGCTGGTAGCAGCAGGCTCAGGCACATACACCTCGTCAAGAGCATGCACATGCTGTCTGGCCCTGGGGATCTTCCCACAGGAGGGCCAGCGCTGTGGACCTTACAACGCCGAGTGCACTGCATTCCTGTGCCCTAGATGCACGTGGGGCCCACTGCTCGTGGACTGTGCTGGTGCATCACGGATGGTGCATGGGCTCGCCGTGTCTCAGCCTCTGCCAGCGCCAAAACAAGCCAAAGAGCCTCCCACCAGAGCCGGGAGGAAAAGGCCCCTGCAATGTGGTGACACCTCCCCCTTTCACACTGGATCCATCTTGAGCCACAGTCACTGGATTGACTTTGCTGTCAAAACTACTGACAGGGAGCAGCCCCCGGGCCGCTGGCTGGTGGGCCCCCAATGACACCCATGCCAGAGAGGTGGGGATCCTGCCTAAGGTTGTCTACGGGGGCACTTGGAGGACCTGGCGTGCTCAGACCCAACAGCAAAGGAACTAGAAAGAAGGACCCAGAACGGCTTGCTTTCCTGCATCTCTGTGAAGCCTCTCTCCTTGGCCACAGACTGAACTCGCAGGGAATGCAGCAGGAAGGAACAAAGACAGGCAAACGGCAACGTAGCCTGGGCTCACTGTGCTGGGGCACGGCGGGATCCTCCACAGAGAGGAGGGGACCAATTCTGGACAGACAGATGTTGGGAGGATACAGAGGAGATGCCACTTCTCACTCACCACTACCAGCCAGCCTCAGAAGGCCCCAGAGAGACCCTGCAAGACCACGGAGGGAGCGACACTTGAATGTAGAATAGGCAGGGGGCCCTGCCCCACCCCATCCAGCCAGACCCCACGCTGACCATGCGTCAGGGGCCTAGAGGTGGAGTTCTTAGCTATCCTTGGCTTTCAGAGCCAGCCTGGCTCTGCCCCCTCCCCCATGGGCTGTGTCCTAAGGCCCATTTGAGAAGCTGAGGCTAGTTCCAGAAAACCTCTCCTGACCCCTGCCTGTTGGCAGGCCCACTCCCCAGCCCCAGCCCCTTCCATGGTACTGTAGCAGGGGAATTCCCTCCCCCTCCTTGTGCCTTCTTTGTATATAGGCTTCTCACGGCGACCAATAAACAGCTCCCAGTTTGTATGCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000005884-ITGA3:NM_002204:25
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=0.306 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGACCGACGACTACTGAGGG
R:
ATGTGCATGCTCTTGACGAGG
Band lengths:
353-1096
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)