HsaINT0027380 @ hg19
Intron Retention
Gene
ENSG00000182472 | CAPN12
Description
calpain 12 [Source:HGNC Symbol;Acc:13249]
Coordinates
chr19:39224343-39224844:-
Coord C1 exon
chr19:39224782-39224844
Coord A exon
chr19:39224422-39224781
Coord C2 exon
chr19:39224343-39224421
Length
360 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGG
5' ss Score
10.07
3' ss Seq
GACTCATCCTTCCTGCCCAGGCC
3' ss Score
7.6
Exon sequences
Seq C1 exon
CATGGGCAAAGCCTGGCCTTACACCACTTCCAGCAGCTCTGGGGCTACCTCCTGGAGTGGCAG
Seq A exon
GTGAGGTGGGAGACTGGGCCTCTTCCCAGAAAGAGAGAAACCTTTACTAACAGAGACATAGGCACCCTGTGGGCTATCAGGTCCCCAGGGAACGAGGGGGTACTGGACTAGGCTGACTTGGAGAGATCTGGCTGGGATATCCCTGCCCCCACCCAGCCTCAGCTTGTCCTCTGGGTCATTGCTCTTATTCCCATTTTACAGATTGGGAAACAGAAGTCCCAAGTGGCTAGGCTGCTTGCTGGGGGTCCACACCAGAAGAAAGGGAGTTGGGATGGGCACCAGGCTGTCTTGCCTGGGAGGCCCCATTGGCAGCCCTCTTCAGGGCATGGAGGGCAGCCCTGACTCATCCTTCCTGCCCAG
Seq C2 exon
GCCATATTTAACAAGTTCGATGAGGACACCTCTGGAACCATGAACTCCTACGAGCTGAGGCTGGCACTGAATGCAGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000182472-CAPN12:NM_144691:17
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon 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
Other assemblies
Conservation
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Genotype-Tissue Expression Project (GTEx)
- Autistic and control brains
- Pre-implantation embryo development
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)