HsaEX0016421 @ hg19
Exon Skipping
Gene
ENSG00000124749 | COL21A1
Description
collagen, type XXI, alpha 1 [Source:HGNC Symbol;Acc:17025]
Coordinates
chr6:56047329-56112544:-
Coord C1 exon
chr6:56112185-56112544
Coord A exon
chr6:56090658-56090709
Coord C2 exon
chr6:56047329-56047454
Length
52 bp
Sequences
Splice sites
3' ss Seq
TAAACACTGTATGCTTCCAGGGA
3' ss Score
5.93
5' ss Seq
ATGGTAAGA
5' ss Score
9.48
Exon sequences
Seq C1 exon
ATTTTCTGATGCTAGCAGGATTTGAACTGAGTGTTTCCACCAGGGCGACACTAGCAGTTCGCCCTTCAAGATCCAGATCCAAAATCCACCCTCTGGTCTTCGGCCAAGGAAAGGGGGCGGGTGGGGAGCGCGAACCTTATCTCCCGGGCTCCGCCTCCAGGGGGCTGAGAGCGAGTTTCTGAGCCTCTGAGCTCTGCACTGGCCGCTGCAGGGAGAACGGACTCCGGGCGGAGGGCAGCCAATCCGTTTCAGCGCAGGTCTTGCTCGGGTTGGGCTTGCCACTGCCTGGAACATACCTGTCCCCCTGGCGCAACACTCAGCTGGCTGCGACGGCAACCCCGAGCCTGGACACTGCGCCAG
Seq A exon
GGATCTCCTACCCAGGAAACAAAGCCCACAGGAAGACCATCACATAGGAATG
Seq C2 exon
GAATCCTAAAACCAAAATATTAGAACGAAAACAGAAACATGGCTCACTATATTACATTTCTCTGCATGGTTTTGGTGCTGCTTCTTCAGAATTCTGTGTTAGCTGAAGATGGGGAAGTAAGATCAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000124749-'1-5,'1-4,3-5
Average complexity
C1*
Mappability confidence:
100%=100=100%
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=0.000
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
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
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:
TTGCCACTGCCTGGAACATAC
R:
GTGAGCCATGTTTCTGTTTTCGT
Band lengths:
132-184
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)