HsaEX0038045 @ hg19
Exon Skipping
Gene
ENSG00000015479 | MATR3
Description
matrin 3 [Source:HGNC Symbol;Acc:6912]
Coordinates
chr5:138629439-138650425:+
Coord C1 exon
chr5:138629439-138629717
Coord A exon
chr5:138642928-138644016
Coord C2 exon
chr5:138650364-138650425
Length
1089 bp
Sequences
Splice sites
3' ss Seq
AATTGCTTATTTTTCTACAGAGT
3' ss Score
7.97
5' ss Seq
AAGGTGAGT
5' ss Score
10.47
Exon sequences
Seq C1 exon
GCGTCCCGCTCGCTGGGAGAGAGGTACCTCTCCTTTTCCCTCTCCCTTTCCCTAAGGTAGGCGTGAAGCGGGTAAGAGTCGGGGTCGGGTGGCTGGGGGTTCTCCGTGTCCGCCGGGAGGGGACAACGACGGCGACAGGGGCTGCGGGGAGCCGGCGGCGCGCCTTTCTTGCTCGCTCCCGCTCTGCCTCCCTCCGCGTTGCGTATGTGAGCCGCCTGATCGGCGGCCGCCATGTTAGGAGCGCAGTGGCGGCGCAACCAGCCTTCTAGGGCGGCGGAG
Seq A exon
AGTTGTCTGCTGGTTCTCAGCTTGAAGAAGATTCTGCAGTCCTTATTGATCCTTTTTCTTGGCGTTACCATTTTTGAAGCAAAGTTAACCTAGCTTTCTAGTTTGAGCTTTCTTTTTGGCCGTCTTTAAAAAAATTTTTTTTTTTAATCTATAAAATAGACAAGAGCTAGTTCTACAATGTCCAAGTCATTCCAGCAGTCATCTCTCAGTAGGGACTCACAGGGTCATGGGCGTGACCTGTCTGCGGCAGGAATAGGCCTTCTTGCTGCTGCTACCCAGTCTTTAAGTATGCCAGCATCTCTTGGAAGGATGAACCAGGGTACTGCACGCCTTGCTAGTTTAATGAATCTTGGAATGAGTTCTTCATTGAATCAACAAGGAGCTCATAGTGCACTGTCTTCTGCTAGTACTTCTTCCCATAATTTGCAGTCTATATTTAACATTGGAAGTAGAGGTCCACTCCCTTTATCTTCTCAACACCGTGGAGATGCAGACCAGGCCAGTAACATTTTGGCCAGCTTTGGTCTGTCTGCTAGAGACTTAGATGAACTGAGTCGTTATCCAGAGGACAAGATTACTCCTGAGAATTTGCCCCAAATCCTTCTACAGCTTAAAAGGAGGAGAACTGAAGAAGGCCCTACCTTGAGTTATGGTAGAGATGGCAGATCTGCTACACGGGAGCCACCATACAGAGTACCTAGGGATGATTGGGAAGAAAAAAGGCACTTTAGAAGAGATAGTTTTGATGATCGTGGTCCTAGTCTCAACCCAGTGCTTGATTATGACCATGGAAGTCGTTCTCAAGAATCTGGTTATTATGACAGAATGGATTATGAAGATGACAGATTAAGAGATGGAGAAAGGTGTAGGGATGATTCTTTTTTTGGTGAGACCTCGCATAACTATCATAAATTTGACAGTGAGTATGAGAGAATGGGACGTGGTCCTGGCCCCTTACAAGAGAGATCTCTCTTTGAGAAAAAGAGAGGCGCTCCTCCAAGTAGCAATATTGAAGACTTCCATGGACTCTTACCGAAGGGTTATCCCCATCTGTGCTCTATATGTGATTTGCCAGTTCATTCTAATAAG
Seq C2 exon
GAGTGGAGTCAACATATCAATGGAGCAAGTCACAGTCGTCGATGCCAGCTTCTTCTTGAAAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000015479-'22-38,'22-32,36-38
Average complexity
C2
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref, Alt. ATG (>10 exons))
No structure available
Features
Disorder rate (Iupred):
C1=0.500 A=0.644 C2=0.311
Domain overlap (PFAM):
C1:
NO
A:
NO
C2:
NO
Other Inclusion Isoforms:
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCTCGCTGGGAGAGAGGTAC
R:
ATTTCAAGAAGAAGCTGGCATCGA
Band lengths:
334-1423
Functional annotations
There are 1 annotated functions for this event
PMID: 31911676
This event
[CRISPR screen]. Conserved poison exon with pro-oncogenic impact when depleted: HeLa Enriched at 14 days (FC=1.631, FDR=0.000), PC9 Enriched at 14 days (FC=1.290, FDR=0.000), Late Xenograft No change (FC=1.451, FDR=0.059).
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Genotype-Tissue Expression Project (GTEx)
- 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)