HsaINT0027437 @ hg38
Intron Retention
Gene
ENSG00000162909 | CAPN2
Description
calpain 2 [Source:HGNC Symbol;Acc:HGNC:1479]
Coordinates
chr1:223757369-223759481:+
Coord C1 exon
chr1:223757369-223757380
Coord A exon
chr1:223757381-223759269
Coord C2 exon
chr1:223759270-223759481
Length
1889 bp
Sequences
Splice sites
5' ss Seq
GAGGTACGT
5' ss Score
10.2
3' ss Seq
TTTCTCTATTTATTCCTCAGTTA
3' ss Score
8.59
Exon sequences
Seq C1 exon
GTTCCAGAGGAG
Seq A exon
GTACGTCTGGCCCATGTCCCGGGGTGCTCAGGTCACCAAAAAAGCGAGAGGCTTAGACTGCTGGAGCTCAGGGAGCGTCGTGAAGCCCGGGCAGGGGCTGGTGGTCATGAAGGATGAGTCCTGGCCACCCCTGGGGCCCTGCTGAAGTTGCCCAGGCTCTAGATCCCACTGGTCTAAGCTCTGGGCAAGGTTTCTGGAAAGTCCTTGTGGGACCCGCTGCCTCCCTGTGACCTGGCAGAGCCCATACAGGGTTTGGTTCTGGGCAGAAAATCCATGATCCTGAGACTGCAGGAGGCTTTTCACAAAGTTCTTTGTCACTCTTAGGAGAAGACTGAGTCAGGGAAAAGGTGAACCCTGCAGACTGTACTAGAAGACAACGCGGGAGCACAGAGGAGACCAGGACCCAATTCCCAGGCTGTGTGACCTTGGACACGTTACAGCTCCTCTCTGCATTTCAGGGTTTTGTTTTTTTTTTTTTTGATTTTTGGTTTGTTTGTTTGTTTTTTGTCTCGCTCTTTCACCCAGGATGAAGTGCAGTGGCATGATCTCGACTCACTGCAACCTCTACCTCCTGGGTTCAAGTGATTCTCCTGCTTCAGCCTCCCCAGTAGCTGGGACTACAGGCACGCACCAGGATGCCAGGCCAATTTTTGTATTTTTAGTAGAGACGGGGTTTCACCATGGTGGCCAGGCTGGTCTTGAACTCCTGACCTCAGGTGATCCACCCCCTTCAGCCTCCCAAAGTGCTAGGATTACAGGTGTAGCCACCGTGCCTGGCTGCATTTCAGTTTATTTTTCAGTAAAACTGGTCAACCATCCACCTCACTGCACTACCGTGGAATGACTTAAATTTTGCGAGAGCATTTGGGCCCACAGTCACCGCTTGCTGAAGCAGATGGGATGCCTGGTCCAAGGTCACGATTATTAAAGTAGACACACGGGGCACTTTGACCCACCTGTAGTACATTTCTTTCACAGCAAGGCAGTGCAACCGGTAGCACATCGGGCTCTTTTAGATGCTGCTCCAGCCTTGGTCCGGTGGATCATGCTTGGTTTAGAAGCTGGGTTGTCTTTCTCCTGCCCCCAGTCCTGTCTTTGCTTTTATAGTGCATCATACACCACGTAGAACCGAGCCAGGTTCCTGCCATGTGGACGCTGTTCCTGCCTGAGAGTCTCTTAGAGGAAGGCTGGGAACACTGTGGAAAGACTGGGCATCTCTGCAGGCGGAGCTGAATGGATGTGAAACCCCTGTGGGCATGTGCTTCCGAGTTCCTCAGCAGGCATTTGTGTTTTTTGGTAGAAAGTTTGCTTTTTGTTTTTTTTTTTTTTAAGACAAGGTCTCATTCTGTCACCCAGGCTAGAGTACAGTGGTGTGATCATAGCTCACTGCCGTCCTTGAACTCTCAGACTCACGTGAGCCTCCTACCTCAGCCTCCTGAGTAGCTGAGACTACAGGCGCTTGCCGCCACCCCTGGCTAATATTTTTATTTTTTGCAGAGACAGGGGTCTCACTACATTGCCCAGGCTGGTCTCAAACTCCTGGCCTCGAGCAATCCTCTCACAGCCTCCCAAAGTGCTGGTATTACAGGCGTGAGCCACCACACCTAACAAAAGTTTGCTTTTTATCTAAAATGACCCAGGCATTGTCACTGTACTGCTATTTTTTTAAAAAAATTTTGTTGTTTTGTTGTTGTTGTCGTCGTTATATAGATGAGGGCTTCCTGTGTTGCCCAGGCTGGTTTCTGACGCCTGGCCTCGCCTCCTTATACACCAGGACAGCAGGACTGAGCCACCACACTACCCAACTGCTTTTATCTCAGTGAATGAAAATGATACTTGCCTGGAGGCTTCCCCTCATCTACCCCCATGTTTCTCTATTTATTCCTCAG
Seq C2 exon
TTAAGTGGGCAGACCAACATCCACCTCAGCAAAAACTTCTTCCTGACGAATCGCGCCAGGGAGCGCTCAGACACCTTCATCAACCTCCGGGAGGTGCTCAACCGCTTCAAGCTGCCGCCAGGAGAGTACATTCTCGTGCCTTCCACCTTCGAACCCAACAAGGATGGGGATTTCTGCATCCGGGTCTTTTCTGAAAAGAAAGCTGACTACCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000162909:ENST00000295006:11
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=FE(1.9=100)
A:
NA
C2:
PF0106717=Calpain_III=FE(44.9=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
- Genotype-Tissue Expression Project (GTEx)
- Autistic and control brains
- Pre-implantation embryo development