HsaEX6032442 @ hg38
Exon Skipping
Gene
ENSG00000060718 | COL11A1
Description
collagen type XI alpha 1 chain [Source:HGNC Symbol;Acc:HGNC:2186]
Coordinates
chr1:102935060-102940434:-
Coord C1 exon
chr1:102940327-102940434
Coord A exon
chr1:102939035-102939088
Coord C2 exon
chr1:102935060-102935113
Length
54 bp
Sequences
Splice sites
3' ss Seq
GTCAAATCTTTCAATTTCAGGGT
3' ss Score
8.98
5' ss Seq
AATGTGAGT
5' ss Score
7.8
Exon sequences
Seq C1 exon
GGAGAAAAAGGTCCCCAAGGGCCTGCAGGGAGAGATGGAGTTCAAGGTCCTGTTGGTCTCCCAGGGCCAGCTGGTCCTGCCGGCTCCCCTGGGGAAGACGGAGACAAG
Seq A exon
GGTGAAATTGGTGAGCCGGGACAAAAAGGCAGCAAGGGTGACAAGGGAGAAAAT
Seq C2 exon
GGCCCTCCCGGTCCCCCAGGTCTTCAAGGACCAGTTGGTGCCCCTGGAATTGCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000060718-'65-67,'65-66,67-67=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(36.0=86.1)
A:
PF0139113=Collagen=PU(20.3=77.8)
C2:
PF0139113=Collagen=FE(24.6=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:
GAGAAAAAGGTCCCCAAGGGC
R:
GTCCTTGAAGACCTGGGGGAC
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