HsaEX0016563 @ hg19
Exon Skipping
Gene
ENSG00000188153 | COL4A5
Description
collagen, type IV, alpha 5 [Source:HGNC Symbol;Acc:2207]
Coordinates
chrX:107834791-107838831:+
Coord C1 exon
chrX:107834791-107834874
Coord A exon
chrX:107836061-107836104
Coord C2 exon
chrX:107838739-107838831
Length
44 bp
Sequences
Splice sites
3' ss Seq
AAAATATAGAACATTTTCAGGAC
3' ss Score
0.24
5' ss Seq
AAGGTAATC
5' ss Score
7.46
Exon sequences
Seq C1 exon
GTGATGAGATATGTGAACCAGGCCCTCCAGGCCCCCCAGGATCTCCAGGTGATAAAGGACTCCAAGGAGAACAAGGAGTGAAAG
Seq A exon
GACCCTGGAAGACTCTTGTGCTCCCTACTCAGTATCCCCCAAAG
Seq C2 exon
GTGACAAAGGTGACACTTGCTTCAACTGCATTGGAACTGGTATTTCAGGGCCTCCAGGTCAACCTGGTTTGCCAGGTCTCCCAGGTCCTCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000188153-'29-32,'29-31,30-32
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=0.400 C2=0.912
Domain overlap (PFAM):
C1:
PF0139113=Collagen=PD(3.4=6.9),PF0139113=Collagen=PU(50.9=93.1)
A:
PF0139113=Collagen=PD(3.4=13.3)
C2:
PF0139113=Collagen=PD(45.5=78.1),PF0139113=Collagen=PU(25.0=46.9)
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Mouse
(mm10)
No conservation detected
Mouse
(mm9)
No conservation detected
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
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:
ATATGTGAACCAGGCCCTCCA
R:
TGGAGGCCCTGAAATACCAGT
Band lengths:
132-176
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)