HsaEX0016424 @ hg19
Exon Skipping
Gene
ENSG00000124749 | COL21A1
Description
collagen, type XXI, alpha 1 [Source:HGNC Symbol;Acc:17025]
Coordinates
chr6:55929376-55933915:-
Coord C1 exon
chr6:55933844-55933915
Coord A exon
chr6:55932093-55932128
Coord C2 exon
chr6:55929376-55929420
Length
36 bp
Sequences
Splice sites
3' ss Seq
ATCAAACTGCCTTTTTGTAGGGG
3' ss Score
6.74
5' ss Seq
CAGGTATGT
5' ss Score
9.8
Exon sequences
Seq C1 exon
GGAGAACCAGGAGCAACGGGTTCCCCAGGAGAACCAGGATACATGGGTTTACCCGGGATTCAAGGAAAAAAG
Seq A exon
GGGGACAAAGGAAATCAAGGTGAAAAAGGTATTCAG
Seq C2 exon
GGTCAAAAGGGAGAAAATGGAAGACAGGGAATTCCAGGGCAACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000124749_CASSETTE2
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=1.000 C2=1.000
Domain overlap (PFAM):
C1:
PF0139113=Collagen=PD(27.5=91.7),PF0139113=Collagen=FE(32.4=100)
A:
PF0139113=Collagen=FE(15.1=100)
C2:
PF0139113=Collagen=FE(19.2=100)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Mouse
(mm10)
No conservation detected
Mouse
(mm9)
No conservation detected
Rat
(rn6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAACCAGGAGCAACGGGTTC
R:
GTTGCCCTGGAATTCCCTGTC
Band lengths:
112-148
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)