BtaALTA0007712-2/2 @ bosTau6
Alternative 3'ss
Gene
ENSBTAG00000004582 | COL20A1
Description
collagen, type XX, alpha 1 [Source:HGNC Symbol;Acc:HGNC:14670]
Coordinates
chr13:54742674-54743779:-
Coord C1 exon
chr13:54743663-54743779
Coord A exon
chr13:54742710-54742712
Coord C2 exon
chr13:54742674-54742709
Length
3 bp
Sequences
Splice sites
5' ss Seq
CGGGTGAAT
5' ss Score
3.31
3' ss Seq
TTACCCCTGTCCCCTCTCAGCAG
3' ss Score
8.17
Exon sequences
Seq C1 exon
GACCCGGGAGCCACGTGACGATCCCTGACCTGCTGGCGGCTACCAAGTACCGGGTCCTGGTCTCAGCCATCTATGGAGCAGGGGAGAGCGTGGCGGTGTCTGCCACAGGCCGGACGG
Seq A exon
CAG
Seq C2 exon
CCTGCCCGGCCCTCCACCTGGATGGCTCCCTCCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000004582-28-24,28-23-2/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (No Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.062 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0004116=fn3=PD(43.2=79.5)
A:
NA
C2:
NO
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Rat
(rn6)
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:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development