BtaALTD0004172-2/2 @ bosTau6
Alternative 5'ss
Gene
ENSBTAG00000008946 | CAPN13
Description
calpain 13 [Source:HGNC Symbol;Acc:HGNC:16663]
Coordinates
chr11:69125090-69127074:+
Coord C1 exon
chr11:69125090-69125918
Coord A exon
chr11:69125919-69126139
Coord C2 exon
chr11:69126946-69127074
Length
221 bp
Sequences
Splice sites
5' ss Seq
CAGGTAACT
5' ss Score
8.63
3' ss Seq
GCTCCCCAACTGTGTCCCAGACT
3' ss Score
4.96
Exon sequences
Seq C1 exon
CACTGTCCCTGCAGGCAAATGGCCCACAGAAAGGTGAAGTCAGGAAATTGCCACCTTCCCTAATGAAATGTAAAATCAGACTCCCACAGGTCACTGCTGAAAGGGCAGCCTCAATGGGTCTCCCTCCTGGGGCTCCTGGCCTGGATGCAGAGCAGGTAGAAACCTGAGCACCTGCTCCCTGCCCCTCCCCCCACTTCCCCCTTTCTCCTTCCTCTTCCGCTTATAAAAATATGTGTTTATTTGGCTGCATGGAAATGATTAGTTGCAGGAAATGGGCTTAGTTGCCCCACAGCATGTGGGATCCTAGTTCCTCGACCAGGGATCAAACCCACATCCCCTGCATTGGAAGGGGGATTCTTAACCACTGGCCCACCAGGGAAGTCCCTCCCCTCCCTTAATTCTTCACAGCAGAGGGTTGTGTTTCTCACACTTAAGGTTGAGAAGAAGCCCCTGGGGGCTTATGGAAGCAGGGAATGTTGAGCCTCACCACCCACCCCAAG
Seq A exon
GTACTGACTCAGGAGGACTAGGCTGGGACTTGAGAACCGGCATCTCTGCCAAGTTCCCAAGTGAGGCCAAAGCTCCTGGTCTGGGGATCACACTTTGAGAACCACTGAATGGCCAGTGGAAGTTGAAACCTTTAAAGGAGACCTCACCCATGACTCCAGAATAATAAAAGGGAGAAAGAAAATAGATGGAATTCAACTGACAAGCTTGCAGGGGCCAGCAG
Seq C2 exon
ACTTCCTCGCAGGGATCTCCATCACCAGCGAGCTGCTGGACCTCATGAAACTCCGGTACAGCGACAGCACTGGCAGGGTCAGCTTCCCCAGCCTGGTCTGCTTACTGATGCGGCTGGAAGCCATGGCAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000008946-28-24,29-24-2/2
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
In the CDS, with uncertain impact
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=0.000
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
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
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:
GATCAAACCCACATCCCCTGC
R:
CGCATCAGTAAGCAGACCAGG
Band lengths:
292-513
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development