HsaEX0016531 @ hg19
Exon Skipping
Gene
ENSG00000134871 | COL4A2
Description
collagen, type IV, alpha 2 [Source:HGNC Symbol;Acc:2203]
Coordinates
chr13:111098176-111099211:+
Coord C1 exon
chr13:111098176-111098229
Coord A exon
chr13:111098766-111098846
Coord C2 exon
chr13:111099145-111099211
Length
81 bp
Sequences
Splice sites
3' ss Seq
AATGCTGCCTTACGACACAGATG
3' ss Score
6.39
5' ss Seq
AATGTAATA
5' ss Score
-1.48
Exon sequences
Seq C1 exon
GGAAGCCGAGGCCTGGATGGCTATCAAGGGCCTGATGGACCCCGGGGACCCAAG
Seq A exon
ATGGCGCTCCACGGGGGTCCTGCGGCCGCATCATCTCCCAGCCCACCCTCGCCAGGCGGCTCGGCTATCACTACCCAAAAT
Seq C2 exon
GGAGAAGCCGGAGACCCAGGGCCCCCTGGACTACCTGCCTACTCCCCTCACCCTTCCCTAGCAAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000134871-'20-21,'20-20,21-21
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (No Ref)
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=1.000 C2=1.000
Domain overlap (PFAM):
C1:
PF0139113=Collagen=FE(27.0=100)
A:
PF0139113=Collagen=PD(8.3=22.2)
C2:
PF0139113=Collagen=PD(23.8=65.2)
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Rat
(rn6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGAAGCCGAGGCCTGGAT
R:
TTTGCTAGGGAAGGGTGAGGG
Band lengths:
119-200
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- The Cancer Genome Atlas (TCGA)
- 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)