HsaEX6032462 @ hg19
Exon Skipping
Gene
ENSG00000060718 | COL11A1
Description
collagen, type XI, alpha 1 [Source:HGNC Symbol;Acc:2186]
Coordinates
chr1:103347253-103352612:-
Coord C1 exon
chr1:103352363-103352612
Coord A exon
chr1:103348755-103348867
Coord C2 exon
chr1:103347253-103347321
Length
113 bp
Sequences
Splice sites
3' ss Seq
TATTTTTTGCTACCTTCTAGGTG
3' ss Score
10.18
5' ss Seq
GGAGTAAGT
5' ss Score
8.57
Exon sequences
Seq C1 exon
GGTCCACCTGGTGAAGTCATTCAGCCTTTACCAATCTTGTCCTCCAAAAAAACGAGAAGACATACTGAAGGCATGCAAGCAGATGCAGATGATAATATTCTTGATTACTCGGATGGAATGGAAGAAATATTTGGTTCCCTCAATTCCCTGAAACAAGACATTGAGCATATGAAATTTCCAATGGGTACTCAGACCAATCCAGCCCGAACTTGTAAAGACCTGCAACTCAGCCATCCTGACTTCCCAGATG
Seq A exon
GTGAATATTGGATTGATCCTAACCAAGGTTGCTCAGGAGATTCCTTCAAAGTTTACTGTAATTTCACATCTGGTGGTGAGACTTGCATTTATCCAGACAAAAAATCTGAGGGA
Seq C2 exon
GTAAGAATTTCATCATGGCCAAAGGAGAAACCAGGAAGTTGGTTTAGTGAATTTAAGAGGGGAAAACTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000060718-'72-75,'72-73,73-75=AN
Average complexity
A_S
Mappability confidence:
100%=100=100%
Protein Impact
ORF disruption upon sequence exclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.791 A=0.042 C2=0.087
Domain overlap (PFAM):
C1:
PF0139113=Collagen=PD(12.7=9.5),PF0141013=COLFI=PU(12.7=32.1)
A:
PF0141013=COLFI=FE(17.5=100)
C2:
PF0141013=COLFI=FE(10.4=100)
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:
GCCTTTACCAATCTTGTCCTCCA
R:
GTTTCTCCTTTGGCCATGATGA
Band lengths:
258-371
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)