HsaEX6032408 @ hg19
Exon Skipping
Gene
ENSG00000060718 | COL11A1
Description
collagen, type XI, alpha 1 [Source:HGNC Symbol;Acc:2186]
Coordinates
chr1:103487263-103496800:-
Coord C1 exon
chr1:103496672-103496800
Coord A exon
chr1:103491772-103491888
Coord C2 exon
chr1:103487263-103487325
Length
117 bp
Sequences
Splice sites
3' ss Seq
TTTTTTCCTTTGCAATGTAGTAT
3' ss Score
5.71
5' ss Seq
GAGGTAAAA
5' ss Score
7.3
Exon sequences
Seq C1 exon
GGGGACATTCAGCAGTTTTTGATCACAGGTGATCCCAAGGCAGCATATGACTACTGTGAGCATTATAGTCCAGACTGTGACTCTTCAGCACCCAAGGCTGCTCAAGCTCAGGAACCTCAGATAGATGAG
Seq A exon
TATGCACCAGAGGATATAATCGAATATGACTATGAGTATGGGGAAGCAGAGTATAAAGAGGCTGAAAGTGTAACAGAGGGACCCACTGTAACTGAGGAGACAATAGCACAGACGGAG
Seq C2 exon
ATAAATGGCCATGGTGCATATGGAGAGAAAGGACAGAAAGGAGAACCAGCAGTGGTTGAGCCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000060718-'4-9,'4-5,6-9=AN
Average complexity
A_C2
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.373 A=0.885 C2=1.000
Domain overlap (PFAM):
C1:
PF0221019=Laminin_G_2=PD(7.8=23.3)
A:
NO
C2:
PF0139113=Collagen=PU(1.7=4.8)
Other Inclusion Isoforms:
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGGGACATTCAGCAGTTTTTGA
R:
AGGCTCAACCACTGCTGG
Band lengths:
192-309
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains
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)