HsaINT0027329 @ hg38
Intron Retention
Gene
ENSG00000014216 | CAPN1
Description
calpain 1 [Source:HGNC Symbol;Acc:HGNC:1476]
Coordinates
chr11:65210336-65210872:+
Coord C1 exon
chr11:65210336-65210452
Coord A exon
chr11:65210453-65210813
Coord C2 exon
chr11:65210814-65210872
Length
361 bp
Sequences
Splice sites
5' ss Seq
TCCGTGAGT
5' ss Score
8.93
3' ss Seq
ACCTTTTCTTGAACACACAGGAT
3' ss Score
7.65
Exon sequences
Seq C1 exon
GCTTCAAGCTCAACAAGAAGCTGTACGAGCTCATCATCACCCGCTACTCGGAGCCCGACCTGGCGGTCGACTTTGACAATTTCGTTTGCTGCCTGGTGCGGCTAGAGACCATGTTCC
Seq A exon
GTGAGTGTCCCCAACTGCCTCCCACCCTCCAGCTCCGTCCCAAACGCGTCCCCCAGGAGCTGGGGGGAATGACAGATGGGTGAATTAGCAGATACAGGCCAGTGCTGTGGGTGTGTGCCAGAGAGGCCTGGGTCTGGGTTTGGGGGGCCCTGGCTGAGTGCCAGGAGAGTCGGGGAGGGAGGGAGTTGACAGTGGCTTCTCAGGCAGCAGGAAGGGGTGAAGCTTCCCAGCTTCAAGGGGTGTCAGCTTGCGGTACTGTGGGGAGGTAGAGAGGGACCAGGCAGGAAGGGGGCCAGGCCTGGCCCTGCGTGAATATCCCACTGAGTTTTCAGCCCTGTATCACCTTTTCTTGAACACACAG
Seq C2 exon
GATTTTTCAAAACTCTGGACACAGATCTGGATGGAGTTGTGACCTTTGACTTGTTTAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000014216:ENST00000533820:20
Average complexity
IR
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(42.9=100)
A:
NA
C2:
PF134991=EF-hand_7=FE(20.9=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
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
- Autistic and control brains
- Pre-implantation embryo development