BtaALTA0005580-2/3 @ bosTau6
Alternative 3'ss
Gene
ENSBTAG00000015865 | CAPN14
Description
Bos taurus calpain 14 (CAPN14), mRNA. [Source:RefSeq mRNA;Acc:NM_001192425]
Coordinates
chr11:68678749-68688366:+
Coord C1 exon
chr11:68678749-68678822
Coord A exon
chr11:68688168-68688213
Coord C2 exon
chr11:68688214-68688366
Length
46 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAAT
5' ss Score
8.76
3' ss Seq
ATGTGTTTTCCTATCTGCAGATA
3' ss Score
11.54
Exon sequences
Seq C1 exon
CTGGCAGCTGGGTTCTATCTGCATTGGGATTAGAGCCTGTCCAGTTGCTTTAAGAAACAAGATCTCCTGTGCAG
Seq A exon
ATACTGGAAGCTGGGGTGTAAGGACTCAATGGGCGACTTTTCGCAG
Seq C2 exon
CTCCCCAGACAGGACTACGAGGCCCTGAAGGAAAGGTGCCTGAGGGACGGCTGTCTCTTTGAGGACAAGAGCTTCCCGGCCGCCCTGAGCTCCATCGGCAGTGGGCCCCTGCTGCGGAAGCTGCCGAGCCGCCTGCAGTGGAGGCGGCCTCCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000015865-0-2,0-1,0-0-2/3
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (No Ref, Alt. ATG)
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=0.000
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
PF0064816=Peptidase_C2=PU(10.9=42.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Mouse
(mm10)
No conservation detected
Mouse
(mm9)
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:
GCAGCTGGGTTCTATCTGCAT
R:
GTCCTCAAAGAGACAGCCGTC
Band lengths:
137-183
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development