HsaALTA1055800-3/3 @ hg38
Alternative 3'ss
Gene
ENSG00000204248 | COL11A2
Description
collagen type XI alpha 2 chain [Source:HGNC Symbol;Acc:HGNC:2187]
Coordinates
chr6:33184145-33185054:-
Coord C1 exon
chr6:33184992-33185054
Coord A exon
chr6:33184294-33184324
Coord C2 exon
chr6:33184145-33184293
Length
31 bp
Sequences
Splice sites
5' ss Seq
GAGGTAACT
5' ss Score
8.77
3' ss Seq
CCCTCCCCATCCCTGGGAAGGAG
3' ss Score
4.3
Exon sequences
Seq C1 exon
GACCCCACCCCAGGTGAAGAGGAAGAAATCCTGGAGTCGAGCCTCTTGCCACCCCTTGAGGAG
Seq A exon
GAGCAGACAGATCTCCAGGTCCCCCCCACAG
Seq C2 exon
CCGACAGGTTCCAGGCAGAGGAATATGGGGAGGGTGGCACAGACCCCCCTGAAGGGCCCTACGATTACACCTATGGCTATGGGGATGATTATCGTGAGGAGACAGAGCTTGGCCCTGCCCTCTCTGCGGAGACAGCCCACTCAGGAGCC
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000204248-13-9,13-8,13-7-3/3
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=0.988
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGAAATCCTGGAGTCGAGCCT
R:
AGGTGTAATCGTAGGGCCCTT
Band lengths:
112-143
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains