HsaEX0016421 @ hg38
Exon Skipping
Gene
ENSG00000124749 | COL21A1
Description
collagen type XXI alpha 1 chain [Source:HGNC Symbol;Acc:HGNC:17025]
Coordinates
chr6:56225860-56247746:-
Coord C1 exon
chr6:56247387-56247746
Coord A exon
chr6:56231061-56231134
Coord C2 exon
chr6:56225860-56225911
Length
74 bp
Sequences
Splice sites
3' ss Seq
ATTGATTGTTTCTTCCTCAGGAA
3' ss Score
8.58
5' ss Seq
GAGGTGTGT
5' ss Score
6.14
Exon sequences
Seq C1 exon
ATTTTCTGATGCTAGCAGGATTTGAACTGAGTGTTTCCACCAGGGCGACACTAGCAGTTCGCCCTTCAAGATCCAGATCCAAAATCCACCCTCTGGTCTTCGGCCAAGGAAAGGGGGCGGGTGGGGAGCGCGAACCTTATCTCCCGGGCTCCGCCTCCAGGGGGCTGAGAGCGAGTTTCTGAGCCTCTGAGCTCTGCACTGGCCGCTGCAGGGAGAACGGACTCCGGGCGGAGGGCAGCCAATCCGTTTCAGCGCAGGTCTTGCTCGGGTTGGGCTTGCCACTGCCTGGAACATACCTGTCCCCCTGGCGCAACACTCAGCTGGCTGCGACGGCAACCCCGAGCCTGGACACTGCGCCAG
Seq A exon
GAAACCTCTTCTGGCATCCTTAGTAAATGGCAGTAGAGTCATCTGGGAGGTAAAAGAAGATTGTACCATGTGAG
Seq C2 exon
GGATCTCCTACCCAGGAAACAAAGCCCACAGGAAGACCATCACATAGGAATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000124749-'1-5,'1-4,2-5
Average complexity
C3
Mappability confidence:
100%=100=100%
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=NA
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NA
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:
GAGGGCAGCCAATCCGTTTC
R:
GGTCTTCCTGTGGGCTTTGTT
Band lengths:
168-242
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