HsaINT0027384 @ hg19
Intron Retention
Gene
ENSG00000182472 | CAPN12
Description
calpain 12 [Source:HGNC Symbol;Acc:13249]
Coordinates
chr19:39220832-39221663:-
Coord C1 exon
chr19:39221605-39221663
Coord A exon
chr19:39221519-39221604
Coord C2 exon
chr19:39220832-39221518
Length
86 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGC
5' ss Score
9.6
3' ss Seq
GTCTTCCTTCTCTTCCTTAGTGG
3' ss Score
8.79
Exon sequences
Seq C1 exon
GCCACTGCAGCCAGCACCTGGATGGGGGTGAGGGGGTCATCTGCCTGACCCACAGACAG
Seq A exon
GTGAGCCAGGTGGGAGGGACAGGGTGGCTCAGGCTCTGTCCTGCGAGCTCCCTGCCTCAAGCCACTGTCTTCCTTCTCTTCCTTAG
Seq C2 exon
TGGATGGAGGTGGCCACCTTCTCCTAGGATCTCCGGATGGGCGCACCTGCTGCTCAGGGCAGGGTTGCTGAGCAAGACCACCTCCCTAGGCCTTGCCTGGCATGGGTGCCACTCTCTCTGGCATCCACCTGTCTGGGGCTAGTCTCTGGCCCTCACTGCTCACGGCCGGGTGACCACTCTGGCCTGCGTACTCCTCACTCAGAAACAAGAACAGCGACAGCCCTTCTCGAGCAGATGACACGAGCTAGTCCACGTTGACAGCTTAAGACAGTGCTAGCTCTGCCCTGGCTCTCCTAGAAGGTGGAGGACAGACACAGGAGAAATAAAAAAAGATGATGCTGCAGGAATCCTTCTTAAAAATATTACATGTTTTATTATCCTGTCCCCAGAGGGTGGTTTATCCAGAAACCAAGAAAAAAAATCAATCAGAATAAACTCAAAAAAAAAAGGTAGGGGGAGCAAAACCATCAACCACCAGGCAGCCAGGCCATCAGCCCACCTCCACCTCTGGAGGGTCCCCAGAGACCCACGCCCGACGCAGACCCGGAGGAGCATCAGCAAGGGGCCCGGGCAGAGAATCGGCTATGTCTTCATTATGAGAGCAGGAGAGACGGCAGAGATATGTTGCTAGGTGAATATATATTTATATAATAAATCCGTAAGTTAATAAAGTAAATAGTAATTCTC
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000182472-CAPN12:NM_144691:20
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTCATCTGCCTGACCCACAG
R:
CAGAGACTAGCCCCAGACAGG
Band lengths:
172-258
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- 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)