BtaALTD0013289-1/2 @ bosTau6
Alternative 5'ss
Gene
ENSBTAG00000003600 | MGC151839
Description
Bos taurus calpain 8 (CAPN8), mRNA. [Source:RefSeq mRNA;Acc:NM_001081619]
Coordinates
chr16:27680861-27682281:-
Coord C1 exon
chr16:27682165-27682281
Coord A exon
NA
Coord C2 exon
chr16:27680861-27680919
Length
0 bp
Sequences
Splice sites
5' ss Seq
TCAGTGAGT
5' ss Score
7.68
3' ss Seq
TTCCTTCTCTGGCATTCTAGAAC
3' ss Score
7.92
Exon sequences
Seq C1 exon
GTTTCACCCTCAGTGACCAGGTCCAGCAGACCATCGCCATGCGGTACGCATGCAGCAAACTCACCATGGACTTTGACAGCTTCATTGCCTGTATGATCCGCCTGGAGACCCTCTTCA
Seq A exon
NA
Seq C2 exon
AACTGTTCAGACTTCTGGACAAGGACCAGAATGGCATTGTCCAGCTCTCTCTGGCTGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000003600-27-30,28-30-1/2
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=0.000
Domain overlap (PFAM):
C1:
PF0229611=Alpha_adaptin_C=FE(41.5=100),PF134991=EF-hand_7=FE(41.9=100)
A:
NA
C2:
PF0229611=Alpha_adaptin_C=PD(10.6=50.0),PF134991=EF-hand_7=FE(20.4=100)
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:
GCATGCAGCAAACTCACCATG
R:
AGCTGGACAATGCCATTCTGG
Band lengths:
116-141
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development