HsaEX6032436 @ hg19
Exon Skipping
Gene
ENSG00000060718 | COL11A1
Description
collagen, type XI, alpha 1 [Source:HGNC Symbol;Acc:2186]
Coordinates
chr1:103428209-103435828:-
Coord C1 exon
chr1:103435775-103435828
Coord A exon
chr1:103431043-103431096
Coord C2 exon
chr1:103428209-103428316
Length
54 bp
Sequences
Splice sites
3' ss Seq
ATAATACTTTGCCTCCTTAGGGA
3' ss Score
8.92
5' ss Seq
CAGGTATGT
5' ss Score
9.8
Exon sequences
Seq C1 exon
GGACCACCTGGGAAGGATGGGCTGCCAGGACACCCTGGGCAACGTGGGGAGACT
Seq A exon
GGATTTCAAGGCAAGACCGGCCCTCCTGGGCCAGGGGGAGTGGTTGGACCACAG
Seq C2 exon
GGACCAACCGGTGAGACTGGTCCAATAGGGGAACGTGGGCATCCTGGCCCTCCTGGCCCTCCTGGTGAGCAAGGTCTTCCTGGTGCTGCAGGAAAAGAAGGTGCAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000060718-'43-46,'43-44,44-46=AN
Average complexity
A_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=FE(22.1=100),PF0139113=Collagen=PU(13.9=61.1)
A:
PF0139113=Collagen=FE(22.1=100),PF0139113=Collagen=FE(21.5=100)
C2:
PF0139113=Collagen=PD(24.7=52.8),PF0139113=Collagen=FE(44.3=100),PF0139113=Collagen=PU(35.6=72.2)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GACCACCTGGGAAGGATGGG
R:
CACCAGGAAGACCTTGCTCAC
Band lengths:
138-192
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)