HsaEX6032438 @ hg19
Exon Skipping
Gene
ENSG00000060718 | COL11A1
Description
collagen, type XI, alpha 1 [Source:HGNC Symbol;Acc:2186]
Coordinates
chr1:103427422-103428316:-
Coord C1 exon
chr1:103428209-103428316
Coord A exon
chr1:103427732-103427821
Coord C2 exon
chr1:103427422-103427475
Length
90 bp
Sequences
Splice sites
3' ss Seq
ATGTTTATTATATTCTTTAGGGT
3' ss Score
8.64
5' ss Seq
CAGGTATAA
5' ss Score
7.46
Exon sequences
Seq C1 exon
GGACCAACCGGTGAGACTGGTCCAATAGGGGAACGTGGGCATCCTGGCCCTCCTGGCCCTCCTGGTGAGCAAGGTCTTCCTGGTGCTGCAGGAAAAGAAGGTGCAAAG
Seq A exon
GGTGATCCAGGTCCTCAAGGTATCTCAGGGAAAGATGGACCAGCAGGATTACGTGGTTTCCCAGGGGAAAGAGGTCTTCCTGGAGCTCAG
Seq C2 exon
GGTGCACCTGGACTGAAAGGAGGGGAAGGTCCCCAGGGCCCACCAGGTCCAGTT
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000060718-'46-49,'46-48,47-49=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=PD(24.7=52.8),PF0139113=Collagen=FE(44.3=100),PF0139113=Collagen=PU(35.6=72.2)
A:
PF0139113=Collagen=PD(15.2=40.0),PF0139113=Collagen=FE(39.7=100)
C2:
PF0139113=Collagen=FE(18.3=100),PF0139113=Collagen=PU(19.8=94.4)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACCAACCGGTGAGACTGG
R:
CCTTCCCCTCCTTTCAGTCCA
Band lengths:
135-225
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)