HsaINT0027327 @ hg38
Intron Retention
Gene
ENSG00000014216 | CAPN1
Description
calpain 1 [Source:HGNC Symbol;Acc:HGNC:1476]
Coordinates
chr11:65210018-65210452:+
Coord C1 exon
chr11:65210018-65210096
Coord A exon
chr11:65210097-65210335
Coord C2 exon
chr11:65210336-65210452
Length
239 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGA
5' ss Score
9.22
3' ss Seq
CACTCACTCTCCTGGACCAGGCT
3' ss Score
5.14
Exon sequences
Seq C1 exon
TCCATCTTCCGGAAGTTTGACCTGGACAAGTCGGGCAGCATGAGTGCCTACGAGATGCGGATGGCCATTGAGTCGGCAG
Seq A exon
GTGAGACTCCAAGGCTGACGGCACCTGTGGGGCCCAGGACAGGTAGCCCCACTGCTCCTATGCCCCAGGCCCTTGTCCCTGGGGTGCTAGTGGTGACATGGTAACAGCCATCTTGTCCTTTTCCCCACGGTTACTAGCACCCTGCCTAGCCCCAGCCCCCTCCTGGGGACCCAACCCCTCCCCCATCCTGTTGGGCAGGGGCTGCGCCTCACTGACCTTCACTCACTCTCCTGGACCAG
Seq C2 exon
GCTTCAAGCTCAACAAGAAGCTGTACGAGCTCATCATCACCCGCTACTCGGAGCCCGACCTGGCGGTCGACTTTGACAATTTCGTTTGCTGCCTGGTGCGGCTAGAGACCATGTTCC
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000014216:ENST00000533820:19
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(28.6=100)
A:
NA
C2:
PF134991=EF-hand_7=FE(42.9=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:
TCCATCTTCCGGAAGTTTGACC
R:
GGAACATGGTCTCTAGCCGCA
Band lengths:
196-435
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