HsaALTA1049973-2/2 @ hg38
Alternative 3'ss
Gene
ENSG00000182472 | CAPN12
Description
calpain 12 [Source:HGNC Symbol;Acc:HGNC:13249]
Coordinates
chr19:38733703-38734204:-
Coord C1 exon
chr19:38734142-38734204
Coord A exon
chr19:38733782-38733940
Coord C2 exon
chr19:38733703-38733781
Length
159 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGG
5' ss Score
10.07
3' ss Seq
CTCTTATTCCCATTTTACAGATT
3' ss Score
9.79
Exon sequences
Seq C1 exon
CATGGGCAAAGCCTGGCCTTACACCACTTCCAGCAGCTCTGGGGCTACCTCCTGGAGTGGCAG
Seq A exon
ATTGGGAAACAGAAGTCCCAAGTGGCTAGGCTGCTTGCTGGGGGTCCACACCAGAAGAAAGGGAGTTGGGATGGGCACCAGGCTGTCTTGCCTGGGAGGCCCCATTGGCAGCCCTCTTCAGGGCATGGAGGGCAGCCCTGACTCATCCTTCCTGCCCAG
Seq C2 exon
GCCATATTTAACAAGTTCGATGAGGACACCTCTGGAACCATGAACTCCTACGAGCTGAGGCTGGCACTGAATGCAGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000182472-29-35,29-34-2/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
ORF disruption when splice site is used (sequence inclusion)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0003627=EF-hand_1=PU(6.9=9.5)
A:
NA
C2:
PF0003627=EF-hand_1=PD(86.2=92.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Mouse
(mm10)
No conservation detected
Mouse
(mm9)
No conservation detected
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
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:
CAAAGCCTGGCCTTACACCAC
R:
CATTCAGTGCCAGCCTCAGC
Band lengths:
130-289
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains