HsaINT0027439 @ hg38
Intron Retention
Gene
ENSG00000162909 | CAPN2
Description
calpain 2 [Source:HGNC Symbol;Acc:HGNC:1479]
Coordinates
chr1:223761581-223762251:+
Coord C1 exon
chr1:223761581-223761617
Coord A exon
chr1:223761618-223762185
Coord C2 exon
chr1:223762186-223762251
Length
568 bp
Sequences
Splice sites
5' ss Seq
GAGGTATTT
5' ss Score
7.63
3' ss Seq
GTCTCTGCCTCACCTTCCAGTTC
3' ss Score
10.61
Exon sequences
Seq C1 exon
AGCTGTCGATGATGAAATCGAGGCCAATCTTGAAGAG
Seq A exon
GTATTTGTAACTCTTTGAATTTCACCCACTCTGTCCTGGACAATCCAGAGAGCAGAGGAGCAAAAAAACTCCAAGAGTTTTTGGACTTCACGAACAAAGCCTGAAACTAAGGATAAAGCCGGGTACTGGGAATCCAAGAGTCGACTACCTGCATCAGCTCTGGCCTCTGTGCTGGGGGCATGGGCCAGTCCCTTGCCTATTGGGCTGTGCTAGCCACTGTCAAAATCCATCCACAACATTCCAGCTAGTCTTTATTCTTCTGAGTCCCCACTAGAATAGATCCTAAAAGGCCATTTTAATTGGATGCTAGAGAAGATACCTCTGTGAGAAATTAGAATATTACTCCTTCCCACATAATTTACATTCCTTCTTGTGTTTTAATTAGAAAAAAAAAACCTTATATTAATTCTTCACACTATACCTGATCTTAACCCAAATCACCGTAGAATTTGGGCCCCAGGGAGGGGTAGAGAAGGGGAGTGGGAGGTGGCTGCCATGGAAGGGCGGGCAGACACTTGGTGTCATGCCTCGCTCTGATGCATTCTCATGTCTCTGCCTCACCTTCCAG
Seq C2 exon
TTCGACATCAGCGAGGATGACATTGATGATGGATTCAGGAGACTGTTTGCCCAGTTGGCAGGAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000162909:ENST00000295006:13
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:
PF0106717=Calpain_III=PD(0.1=0.0)
A:
NA
C2:
PF138331=EF-hand_8=PU(0.1=0.0)
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