HsaEX0016431 @ hg19
Exon Skipping
Gene
ENSG00000169436 | COL22A1
Description
collagen, type XXII, alpha 1 [Source:HGNC Symbol;Acc:22989]
Coordinates
chr8:139889993-139926236:-
Coord C1 exon
chr8:139925862-139926236
Coord A exon
chr8:139895325-139895487
Coord C2 exon
chr8:139889993-139890559
Length
163 bp
Sequences
Splice sites
3' ss Seq
GGGTGTCTTTCTCCACACAGGCC
3' ss Score
9.77
5' ss Seq
CAGGTGGGG
5' ss Score
6.92
Exon sequences
Seq C1 exon
GGGGCTGGCCGAGGCTGCGGCGTTTCTCCCCAAGGAAGTGTCTTCTCCGCTTTCCCTGTTCTTCTGTTTCTCACACACTTTCTATCTCATTCTGTAACTTTCAAGCCTTTCCTTCTAACTGTATGTATTTAGTTACTTGTTTTCAAGCTGGTTCCCTCTCTGGCCCCCTGGCCTGGGGAAAGCCTCCACACTTACTGCGGGTCTTGTTTAGAGTCTGAGTTTGTGAGATTATTTGGGGGAGAGTGGGCGAGTGGCTGACAGGTGACCCCCAGGAGGAGGATTCCTGGGGCTGGTGTCTTCTCCCAGCTGCTGCTTCCAGTGGGCCTGGGCCCAGGACTGGACCTCCGCTGGCACCCCTGAGTGCCTCCCTGCCAG
Seq A exon
GCCATGCTGCTGTAGACCCTAACAGCGTCTCTTCCTGGCCAAGAGAAGCCTGTCCCCAAGAACAGGAGAGCCATGGCCGGCCTCCGAGGGAACGCTGTGGCTGGCCTCCTCTGGATGCTGCTGCTGTGGAGTGGGGGCGGCGGCTGCCAGGCTCAGCGGGCAG
Seq C2 exon
GTTGCAAAAGTGTCCACTACGATCTGGTCTTCCTCCTGGACACCTCCTCCAGCGTGGGCAAGGAGGACTTTGAGAAGGTCCGGCAGTGGGTGGCCAACCTGGTGGACACCTTCGAGGTGGGCCCCGACCGCACCCGTGTGGGGGTCGTGCGCTACAGCGACCGGCCCACCACGGCCTTCGAGTTGGGACTCTTTGGCTCGCAGGAGGAGGTCAAGGCGGCTGCCCGGCGTCTCGCCTACCACGGGGGCAACACCAACACGGGAGACGCGCTCCGCTACATCACGGCCCGCAGCTTCTCCCCACACGCCGGCGGCCGCCCCAGGGACCGCGCCTACAAGCAGGTGGCCATCCTGCTCACCGACGGCCGCAGCCAGGACCTGGTGCTGGACGCCGCGGCGGCAGCCCACCGCGCTGGCATCCGCATCTTTGCCGTGGGCGTGGGCGAGGCACTCAAGGAGGAGCTGGAGGAGATCGCCTCAGAGCCCAAGTCCGCCCACGTC
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000169436_CASSETTE2
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref, Alt. ATG (>10 exons))
No structure available
Features
Disorder rate (Iupred):
C1=NA A=0.000 C2=0.005
Domain overlap (PFAM):
C1:
NA
A:
NO
C2:
PF0009223=VWA=WD(100=92.6)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACTGCGGGTCTTGTTTAGAGT
R:
TCTCAAAGTCCTCCTTGCCCA
Band lengths:
257-420
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)