HsaINT0027330 @ hg19
Intron Retention
Gene
ENSG00000014216 | CAPN1
Description
calpain 1, (mu/I) large subunit [Source:HGNC Symbol;Acc:1476]
Coordinates
chr11:64978285-64979476:+
Coord C1 exon
chr11:64978285-64978343
Coord A exon
chr11:64978344-64978730
Coord C2 exon
chr11:64978731-64979476
Length
387 bp
Sequences
Splice sites
5' ss Seq
AAGGTGGGA
5' ss Score
6.03
3' ss Seq
ACCTGCCTGTTCTCCCGCAGTGG
3' ss Score
10.85
Exon sequences
Seq C1 exon
GATTTTTCAAAACTCTGGACACAGATCTGGATGGAGTTGTGACCTTTGACTTGTTTAAG
Seq A exon
GTGGGAACCTCCCTGGGCCCATGGTTGGGGAAGAGTTCCAGGCGATCGAATTTTCTTATCTGGCCAGTGTTCCCTGTCCTTTCCTGGAAATGAGCCTGGGCCTCAGAGCCAACCCTGAAGCCCGGGCCACCTGAATCCTGAAAGGCTGGGGTGGGGGTGTCTGGATTCTGGGAAAGGAGCAGGAGGGGAGGTCCAGGCCCTTGGAGGCCCCTATGGGAGCAGCACTCTGGTTTCCCAGGGGTGGAGGAGGTAAGAAAGTAACCCCTCCATGAGGTTCCTGAGGTGGCTCCTGAGACGTGGAGTTGGGGGCTGGACCTGGGGTTTGGGTGGGGAAGAAGCCAGGGAGCCATTTCTGCGGCCCCAGCTGACCTGCCTGTTCTCCCGCAG
Seq C2 exon
TGGTTGCAGCTGACCATGTTTGCATGAGGCAGGGACTCGGTCCCCCTTGCCGTGCTCCCCTCCCTCCTCGTCTGCCAAGCCTCGCCTCCTACCACACCACACCAGGCCACCCCAGCTGCAAGTGCCTTCCTTGGAGCAGAGAGGCAGCCTCGTCCTCCTGTCCCCTCTCCTCCCAGCCACCATCGTTCATCTGCTCCGGGCAGAACTGTGTGGCCCCTGCCTGTGCCAGCCATGGGCTCGGGATGGACTCCCTGGGCCCCACCCATTGCCAAGCCAGGAAGGCAGCTTTCGCTTGTTCCTGCCTCGGGACAGCCCCGGGTTTCCCCAGCATCCTGATGTGTCCCCTCTCCCCACTTCAGAGGCCACCCACTCAGCACCACCGGCCTGGCCTTGCCTGCAGACTATAAACTATAACCACTAGCTCGACACAGTCTGCAGTCCAGGCGTGTGGAGCCGCCTCCCGGCTCGGGGAGGCCCCGGGGCTGGGAACGCCTGTGCCTTCCTGCGCCGAAGCCAACGCCCCCTCTGTCCTTCCCTGGCCCTGCTGCCGACCAGGAGCTGCCCAGCCTGTGGGCGGTCGGCCTTCCCTCCTTCGCTCCTTTTTTATATTAGTGATTTTAAAGGGGACTCTTCAGGGACTTGTGTACTGGTTATGGGGGTGCCAGAGGCACTAGGCTTGGGGTGGGGAGGTCCCGTGTTCCATATAGAGGAACCCCAAATAATAAAAGGCCCCACATCTGTCTGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000014216-CAPN1:NM_005186:21
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:
PF134991=EF-hand_7=FE(20.9=100)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGGACACAGATCTGGATGGAGT
R:
CGAGGCAGGAACAAGCGAAAG
Band lengths:
350-737
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)