BtaALTD0004170-2/2 @ bosTau6
Alternative 5'ss
Gene
ENSBTAG00000013239 | CAPN12
Description
Bos taurus calpain 12 (CAPN12), mRNA. [Source:RefSeq mRNA;Acc:NM_001192697]
Coordinates
chr18:48750594-48751555:-
Coord C1 exon
chr18:48751520-48751555
Coord A exon
chr18:48751510-48751519
Coord C2 exon
chr18:48750594-48750757
Length
10 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGT
5' ss Score
10.1
3' ss Seq
GACCACCAGCCACCGTCCAGGAT
3' ss Score
-0.72
Exon sequences
Seq C1 exon
AGTGGCGAGATGCCTTGCTGGTGAAAAAGGAGGATG
Seq A exon
GTGAGTTCTG
Seq C2 exon
GATGGAGCTGCTGGACTTCTTCCGCCACTTCGACACCATCCAGATCTGCTCGCTGAGCCCCGAGGTGCTAGGCCCCAGCCCGGCTGGAGGCGGCTGGCACATCCACACCTTCCAAGGCCGCTGGGTGCGCGGCTTCAACTCTGGCGGGAGCCAGCCTGGTGCCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000013239-8-8,9-8-2/2
Average complexity
Alt5
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=0.018
Domain overlap (PFAM):
C1:
PF0064816=Peptidase_C2=FE(8.3=100)
A:
NA
C2:
PF0064816=Peptidase_C2=PD(6.3=33.9),PF0106717=Calpain_III=PU(13.7=42.9)
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:
CGAGATGCCTTGCTGGTGAAA
R:
CTAGCACCTCGGGGCTCAG
Band lengths:
102-112
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development