BtaALTA0005575-2/2 @ bosTau6
Alternative 3'ss
Gene
ENSBTAG00000021066 | CAPN11
Description
calpain 11 [Source:HGNC Symbol;Acc:HGNC:1478]
Coordinates
chr23:17819822-17820333:+
Coord C1 exon
chr23:17819822-17819886
Coord A exon
chr23:17820004-17820232
Coord C2 exon
chr23:17820233-17820333
Length
229 bp
Sequences
Splice sites
5' ss Seq
CAGGTACGT
5' ss Score
10.65
3' ss Seq
ATGTTCTTCTCACCTCACAGTGG
3' ss Score
8.96
Exon sequences
Seq C1 exon
AAACAGCGTACTTTCTAACCATGGACCCTGAGAACACTGGCCAGATTTCCCTGGACCTGAACCAG
Seq A exon
TGGCTGCAGATAACCATGTGGGGTTAGAGGCACTGCAGGATCCCGACTTCCTTCCACCACCAGCACCACCACCAGCCCCCACAGGGCTACTCCCTGTGGCACTCAGCTCTGCAGCCTCTGCTGATGGAATGGACCCTGGATGCCAGGCTCACTCCATCAGCGGGCCTCCGGGCCCACCTTCCCGGGCCCACCTTCCCCACTCAAAATGTTTTTCTTTTACCCCAACCAG
Seq C2 exon
GCTTCCAGTGGCTGGATTTACTCCACAGTTTCCTCCCTCTCCAAGTATATTTCACTACAGGTGAAGTTACACTTTCCCCAGTGTCCCCAGCTGGGGAGGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000021066-24-27,24-26-2/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF134991=EF-hand_7=PD(20.0=81.8)
A:
NA
C2:
NO
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Mouse
(mm10)
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:
AAACAGCGTACTTTCTAACCATGGA
R:
GCTGGGGACACTGGGGAAAG
Band lengths:
156-385
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development