HsaEX6032455 @ hg38
Exon Skipping
Gene
ENSG00000060718 | COL11A1
Description
collagen type XI alpha 1 chain [Source:HGNC Symbol;Acc:HGNC:2186]
Coordinates
chr1:102890451-102898773:-
Coord C1 exon
chr1:102898666-102898773
Coord A exon
chr1:102898125-102898178
Coord C2 exon
chr1:102890451-102890504
Length
54 bp
Sequences
Splice sites
3' ss Seq
ATCATTTTTATTTTCTCTAGGGA
3' ss Score
9.64
5' ss Seq
ATGGTGAGT
5' ss Score
10.13
Exon sequences
Seq C1 exon
GGGGAAGCAGGTGCAGAAGGTCCTCCTGGAAAAACCGGCCCAGTCGGTCCTCAGGGACCTGCAGGAAAGCCTGGTCCAGAAGGTCTTCGGGGCATCCCTGGTCCTGTG
Seq A exon
GGAGAACAAGGTCTCCCTGGAGCTGCAGGCCAAGATGGACCACCTGGTCCTATG
Seq C2 exon
GGACCTCCTGGCTTACCTGGTCTCAAAGGTGACCCTGGCTCCAAGGGTGAAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000060718-'82-86,'82-84,83-86=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(13.5=27.8),PF0139113=Collagen=FE(57.4=100)
A:
PF0139113=Collagen=FE(24.6=100),PF0139113=Collagen=FE(22.4=100),PF0139113=Collagen=PU(6.3=27.8)
C2:
PF0139113=Collagen=PD(2.9=11.1),PF0139113=Collagen=FE(22.4=100),PF0139113=Collagen=FE(21.5=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:
AAGGTCCTCCTGGAAAAACCG
R:
CTTTTCACCCTTGGAGCCAGG
Band lengths:
146-200
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains