HsaINT0027442 @ hg38
Intron Retention
Gene
ENSG00000162909 | CAPN2
Description
calpain 2 [Source:HGNC Symbol;Acc:HGNC:1479]
Coordinates
chr1:223766367-223769909:+
Coord C1 exon
chr1:223766367-223766431
Coord A exon
chr1:223766432-223769840
Coord C2 exon
chr1:223769841-223769909
Length
3409 bp
Sequences
Splice sites
5' ss Seq
GATGTATCC
5' ss Score
1.64
3' ss Seq
CTTTCCTTGACTGAAGGCAGTCG
3' ss Score
-2.26
Exon sequences
Seq C1 exon
GCCAAGATATCAAGTCAGATGGCTTCAGCATCGAGACATGCAAAATTATGGTTGACATGCTAGAT
Seq A exon
GTATCCTTTAATGTGCTCCAGGGAATAGAGACTGGGGGAGTTTAAAATCTCACTCCAGAAAGATTCAAACACATGGCCTTCTCCCTTTTCAAAATAGCCAGTTGTTCCCAACTTGCTGAGTTGCTGTCGGACAGTCAGCAGCGCTGACCTCCCTTACTAGGGAAATGCGAGAACCCTCTGATGAGGGAAAGCAAATGCTACACCCCCCCTCCCACCTACCCTGAAAGGCTTAGAATGCAGGCCCATGGCGGGCGGTGGCTCATGCCTGTAATCCCAGCACTTTGGAAGGCCAAGGTGGGCCTCCTGACTCACGAGGTCAGGAGTTCGAGACCAGCCTGACCAACATGGTGAAACCTTGTCTCTACTAAAAATACAAAAATTAGCTGGGTGTGGTGGCGGGCACCTGTAATCCCAGCTACTCAGGAGGCTGAGGCAGGAGAATCACTTGAACCTGGGAGGCGGAGGTTGCAGTGAGCTGAGATCGCGCCACTGCACTCCAGCCTGGGTGACAGAGCGTGACTCATCGCCAAAAAAAAAAAAAGAAAAAGAATGTAGGCCCACCAGTCCATTCCTGGGGCTGGTGCGGGAAATTCCTGACAATATGCCCATCACTTCTTTGCACAAAGCAGCTCGAATTTGTTTCCTCAGTGATGTGTTTCCATTACTTCCTCTAGGAAAATATTCCCTAACCACAGTATTTCTGATGTGAATCTGTTTTGTCTGATCAAGATCGTCGTCTTCTTTATTTATTTATTTATTTATTTTTTATTATTATACTTTAAGTTTTAGGGTACATGTGCACAATGTGCAGGTTAGTTACATATGTATACATGTGCCATGCTGGTGCTTTGCACCCACTAACTCGTCATCTAGCATTAGGTATATCTCCCAATGCCATCCCTCCCCCCTCCCCCCACCCCACAACAGTCCCCAGAGTGTGATGTTCCCCTTCCTGTGTCCATGTGTTCTCATTGTTCAATTCCCACCTATGAGTGAGAATATGCGGTGTTTGGTTTTTTGTTCTTGCGATAGTTTACTGAGAATGATGATTTCCAATTTCATCCATGTCCCTACAAAGGACATGAACTCATCATTTTTTATGGCTGCATAGTATTCCATGGTGTATATGAGCCACATTTTCTTAATCCAGTCTATCGTTGTTGGACATTTGGGTTGGTTCCAAGTCTTTGCTATTGTGAATAATGCCGCAATAAACATACGTGTGCATGTGTCTTTATAGCAGCATGATTTATAGTCCTTTGGGTATATACCCAGTAATGGGATGGCTGGGTCAAATGATATTTCTAGTTCTAGATCCCTGAGGAATCGCCACACTGACTTCCACAATGGTTGAACTAGTTTACAGTCCCACCAACAGTGTAAAAGTGTTCCTATTTCTCCACATCCTCTCCAGCACCTGTTGTTTCCTGACTTTTTAATGATTGCCATTCTAACTGGTGTGAGATGGTATCTCATTATGGTTTTGATTTGCATTTCTCTGATGGCCAGTGATGGTGAGCATTTTTTCATGTGTTTTTTGGCTGCATAAATGTCTTCTTTTGAGAAGTGTCTGTTCATGTCCTTTGCCCACTTTTTGATGGGGTTGTTTGTTTTTTTCTTGTAAATTTGTTGGAGTTCATTGTAGATTCTGGATATTAGCCCTTTGTCAGATAAGCAGGTTGCGAAAATTTTCTCCCATTTTGTAGGTTGCCTGTTCACTCTGATGGTAGTTTCTTTTGCTGTGCAGAAGCTCTTTAGTTTAATTAGATCCCATTTGTCAATTTTGGCTTTTGTTGCCATTGCTTTTGGTGTTTTAGACATGAAGTCCTTGCCCATGCCTATGTCCTGAATGGTAATGCCTAGGTTTTCTTCTAGGGTTTTGATGGTTTTAGGTCTAACGTTTAAGTCTTTAATCCATCTTGAATTGATTTTTGTATAAGGTGTAAGGAAGGGATCCAGTTTCAGCTTTCTACATATGGCTAGCCAGTTTTCCCAGCACCATTTATTAAATAGGGAATCCTTTCCCCATTGCTTGTTTTTCTCAGGTTTATCAAAGATCAGATAGTTGTAGATACGGCGTTATTTCTGAGGGCTCTGTTCTGTTCCATTGATCTATATCTGTTTTGGTACCAGTACCATGCTGTTTTGGTTACTGTAGCCTTGTAGTATAGTTTGAAGTCAGGTAGTGTGATGCCTCCAGCTTTGTTCTTTTGGCTCAGGATTGACTTGGCGATGCGGGCTCTTTTTTGGTTCCATATGAACTTTAAAGTAGTTTTTTCCAATTCTGTGAAGAAAGTCATTGGTAGCTTGATGGGGATGGCATTGAATCTGTAAATTACCTTGGGCAGTATGGCCATTTTCACAATATTGATTCTTCCTACCCATGAGCATGGAATGTTCTTCCATTTGTTTGTATCCTCTTTTATTTCCTTGAGCAGTGGTTTGTAGTTCTCCTTGAAGAGGTCCTTCACATCCCTTGTAAGTTGGATAAGATCGTCTTCTTGATTTAGATAAGGGCTACTTTCATGAGGATCCTACTTCCCTTTTGCTCTAGCTCCTTCCCAGGCCACCCACCTTTCCCCAAGGCAAACTAGTCATCCATTTCCCCCTTGTTTCCAATGCTTAGTGAGAAGTGGTGGTAAGGGGCAGCCTAAGCTTCTGTGAAGTTTTTTCTGTTTGTTTGTTTAGTTGGTTGGTTGGTTTTTTGAGACGGGGTCTCACTGTGTCACCCAGGCTGGAGGGCAGTGGCATGATCTCAGCTCACTCGAACCTCCGCCTCCCAGGTTCAGGTGATTCTCCCCCCTCCAGCCTCCCTAGTAGCTAGGACTACAGGTGCGCGCCACCATGCCCAGCTGATTTTTCTATTTTTAGTAGAGACAGGGTTTCACCGTGTTGGCCAGGCTGGTGTCGAATTCCTGACCACAGGTGATCTGCCCACCTTGGCCTCCCAAAGTGCTGGGATTAGAGGTGTGAGCCACCATGCCTGGCCACTTCTGTGAAGTTTTATCTAGTGGATTCATGGTGTACACCTGCTAGCTCCCTTCACCAAAGGCCTCTTAGATATACTCCACATACTTTAAAAAAAACAGCAAGGGCCTAGCCACTAGAAGCCATCCAAAGCCCTCTGCATGTCATCCAATACCTCATTTTTAGTAGTATCTGGGGCCTCCACAGCACCCCTAGATCAAAACAGCAACCAGATTCGGCAGGGAGCCAGCAGGTCTTTCTCGCCCTTCCTCCAATCCTTTAAATGGAGGTTTAGCCAGTGGGAAAAGCAGGAAAAGGATCCTTCTGCAAACCCTCCTTGTGTATATGCTATGATATTCAAAAGATCCAGTTGAGAAGACAAACTAGGTGACACTATGTGCAAATGGACCCACACTCAAGGGCTTTCCTTGACTGAAGGCAG
Seq C2 exon
TCGGACGGGAGTGGCAAGCTGGGGCTGAAGGAGTTCTACATTCTCTGGACGAAGATTCAAAAATACCAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000162909:ENST00000295006:16
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:
PF138331=EF-hand_8=FE(34.4=100)
A:
NA
C2:
PF138331=EF-hand_8=PD(29.5=78.3),PF134991=EF-hand_7=PU(2.4=8.7)
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