HsaINT0027451 @ hg38
Intron Retention
Gene
ENSG00000162909 | CAPN2
Description
calpain 2 [Source:HGNC Symbol;Acc:HGNC:1479]
Coordinates
chr1:223749039-223750975:+
Coord C1 exon
chr1:223749039-223749122
Coord A exon
chr1:223749123-223750889
Coord C2 exon
chr1:223750890-223750975
Length
1767 bp
Sequences
Splice sites
5' ss Seq
GAGGTAACG
5' ss Score
9.65
3' ss Seq
CCTTTTATCTAATCCTGCAGGTT
3' ss Score
10.75
Exon sequences
Seq C1 exon
ATCACCAGCGCCGCGGACTCGGAGGCCATCACGTTTCAGAAGCTGGTGAAGGGGCACGCGTACTCGGTCACCGGAGCCGAGGAG
Seq A exon
GTAACGGCCGGCGCGGATGTGCAGGGGTCCTGCTGTCCTGACACGATGGCCACAGGCACAGTTTGTGGTGATGCCCAGGGGCCCGCGCGGCCCCACGGTGGTCCAGTTTACACTCGGGCCCCGCACTCCTGAAGTTCCGCGCGGGAGGAGAAGGGCGTCCCTTTCGCAGCTCGGGCGCCGGGTGCGCCGCGCTGCCACCTGGTGGCCGCAGTGGCCGGCGCCAGGGGCCCTGGTTTTACTTGTTTTAGATGTTACCCTGTTTTACAGTTACAACCTTACTATTTTGATAAGCTAAAAATAATAAAACAATGCATCTTCATAGTGTTTTATACTCTATAAGGTGCTTTCTCTTTTGATCTCGTAAAAGTATTCGTGCCCATGTTCAAATCTGACTGCCTCTTACCAGCTGTGTGGCCTGGGCCAATTACTGGAACTCTCTGTCCCTTAGTTTCCTCATTTAAAAAATGGAAATAATGATAATATCCATTGGAAGGTCGTGGCGATTCAATCAAGTTAATATATGTAAAGTGCTCAGAGGTGACTCACACATCATATATAAGGAGGTAGCTGTCCTTGCTGTTGTGATCACTGTTGTTATTGAAAATATTATGGGCTGACATGGTGGCTCACACCTGAAATCCCAACACTTTGGGAGACCGAGGTGGGAGGATCACTCGAGCCTAGGAGTTCAAGACCAGCCTGGGCAACGTAGCAAGAACCTGTCTCTACAAAAAAAAGTTAGCTGGGCATGGTGGCATGCCACTGTCGTCCCAGCTACTCGGGAGGCTGAGGTGGGAGGATCACTTGAGCCCAGGAGGTCGAGGCTGTAGTGAGCCATGATCATGCCATTGCACCCCAGCCTCAGCGACAAAGTAAGACCATGTCTCAAAAAAAAAATTATCAAGCAACTCAAGTTCACTGTTAATTACAGAACCCAGTCTAGACCGCAGATCTTCTGCATGTCCAGTGTTCTTTTTTTAACCTTGATTTTTTTAACTACCCCCTCACACACACACGTCTTTTTATTTGAAAATTTTCACGTATACAGAAAAGTTGAAAGACTAACATAATAACTATCCAATTGCCACTCCCCTAGATTCACCGATTGCTAACATTTGCCATGTCTGCTTTATCTATGTGTGCACTTTTTTTGAGCCATATGAAAGTAAGTTGCAGACGTTATGACACTTCCCTCCTCAATACTTCAGCATTTATTCCCTATGAATAAGGACATTCTGTTACATAATTCCTCTACTGTTGCCACACCTAAGAAAATAACATTAATTCAGTAGTGTCATCTATTATAAAGTCTATACTAACATTTTCCCAGTTGCCCAAAATGTCCTTTCTGGCGACCCACCCCAACCCCATCCAGGACTCAATCCAGATTCACTCACTGCATGTGCCTGTTATCACCAGTGATCTTTCAACAAATGGTAAAGCTTCTCTGAGCTCCTTTACCAAAAGCGCATCCTGTCAGTTAAGCTGAAGTTCAGAGATGAAGCACCAACAGCCCCATCCTCGAGAGCCGGATCCTGGGAGCTTTAAATCTCATTTTCCAAAGCTAGGCAGCAGTGAGAGGTCTGGGTGCCAAGCCCCCTCTAGCTCTTGTGATCCTCCCTCATACATGGACTCAACCCCCAAATCCTCCCCACCGTCCTCAGCCCCATACCTCCTGGCTCATGCGGAAGGGGGTTGGAGGCCCAAGCCTTCATAGCCCTGACTTGAACTCAACCTCTTACTCCTCCCTTTTATCTAATCCTGCAG
Seq C2 exon
GTTGAAAGTAACGGAAGCCTACAGAAACTGATCCGCATCCGAAATCCCTGGGGAGAAGTGGAGTGGACAGGGCGGTGGAATGACAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000162909:ENST00000295006:6
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:
PF0064816=Peptidase_C2=FE(10.2=100)
A:
NA
C2:
PF0064816=Peptidase_C2=FE(10.5=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