HsaINT0027561 @ hg38
Intron Retention
Gene
ENSG00000135773 | CAPN9
Description
calpain 9 [Source:HGNC Symbol;Acc:HGNC:1486]
Coordinates
chr1:230759512-230762786:+
Coord C1 exon
chr1:230759512-230759630
Coord A exon
chr1:230759631-230762652
Coord C2 exon
chr1:230762653-230762786
Length
3022 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGA
5' ss Score
10.77
3' ss Seq
GTCTTTTTCCTGGGCAACAGTTC
3' ss Score
4.43
Exon sequences
Seq C1 exon
GAGACTGCTGGCTATTAGCCGCCATCGCCTCCCTTACGCTTAATCAAAAAGCACTGGCCAGAGTCATCCCCCAGGACCAAAGCTTTGGCCCTGGTTATGCCGGGATATTCCATTTCCAG
Seq A exon
GTAAGAGGGAGCCCTGGGCCAGTGGGTTTACCTCTCTGGGGCCCGGCATGAGGGCAGGTGCATTTCCACACTGCCTGGTAACCCTAGAAAAAAATGTCATCAGATCTGTGTGACATATGGTCCTAAACCATGCTAAAGCCACATTTTATCATGGAATAACAGCTAAATGCCTCAGAAGAACATTAACGGCATTGCACGGTGAATCCTTATGGAGCATACATTTAAAACTATAAGTGATGTTTTGGCAAATCTGGAGGTCCATCTGTTAAGGGTTTTATTATTTGGAATTTCTTGTGCTTTAAGCACAAATTGACTAAACCAATTATACCTCCAGGAAACTGGTTGATTTCTCATAAACAGAGAGGTTCTCTTTATGGAAGAATTGTAAATTTGGAGATCTTGAGGGATTTTAAAAAATAAAAACTGAGAAAAATACAGACAACATCTGCTGGAGTCCCGTGTGACCCGCAGACCCTCAGCCGAGGTGCACATCAGGAGAGGCTTGCCCCCAGGAGATGGTTTCCTGCTGCTTCACCTCACTTTCTATCCCTCCAGTCTCTCCTCCACCCCTGTCCTTATATAGGGTTCGACCAGATACTGAAACTTGCCCCTTGTTCTTACTTAGGTGGGTGACCTCAGACAATTTTCTTAGTGACATTAAACCTTTCTACACTCGTCTGAAAAAAGGAGAGACTGACAGTTCCCTGCAGGCTTCCCGTAGAGCTAAATGGCATCACACACAGGAGCCGGCACAGAGCCAGGCACCGAGTAGGCATTCCTTGACCTTCCACCCCAGACAGTGTCACCTTCTCCTGACTCACAGGCCACCACTCAGGGCCAGCCCGTTTCTTCTGTCCCTGAAGCCTGCAATCTGATAAGCAGAGGTACTCTCAAGCCCTGTCACCAATAGCACAGAAGTGTTTCAAAGGCAAAGAGAGTGAGCAGGTCACATGTAGCTCAGGGAGCATGCAATTCCCAGGGGTCAGGCCTCCTGCGCCGGCTGGGGACAGAGCCACTTTGGGTCCCAGGGAAACTCTACCCCTGCTCTCTCACAGACCTGCCACCACCTGGCTGTCTCCCTTCCCATCCTGTGACTTCTGCTGAGACCACAGTCTTGGTTTGATGGCGCCCCCAGGAGCCGGTCTTTCCCCAGTCCTCTTAAACACACCAGGGTGGCAGTGTTGGGGGTGGTTAAGCTCAGAAAATCCAGCAGAACTACTGCCTCTAAACCAGAACCAGAACCAGCAGAACTACTGCCTCTAAACCAGAACCAGAACCACCACCTCTTGGGCTCCCAAAAGGAACAGTGTTCTTGTCCCTTGAATGTCACAGCTGGGAGGAGCCTTGGCAATCCCCTGACCCAGTCCTCTCATTAACTCCCGAGGACACTGAGTCCCAGGGAGTGGAAGTGGTTGATCCAGGGTCACAAAACAATAAGTAGCCAAGCCAGACCTAGAACTCAGGAGTTCTGGATCCAGCATCCTTTTGTGCTGCCAGGGATCATGTGGGGGTGGGGAGTGACCCTGTTGATGCCTGTCAGTCCCGCAATAACAATACTCCGCCCGCTCCCCTCCTTGGCCTTCTAGGAAGCAGAGCTTTGGAAATAAATCCACCTCCTTCACACTCCTCTTCCACTCCTCAGCCACAGTGCAGGTGTGCGTGCTAGGAAGTTAGCAGAGCTCTCTGGGCTGGCAGATAATCTCTCCTGACTCACAGGCCCCCTGAGCCAGCCCCTCTGCAAGGAAAGCCAGCCCTGAGGCTCCTCCCCACTGCTCCCCTGCTCAGGAACCCCAAGGCCCAGGCCCGAACTTTAAACACCTAACCCAACTGTGCCTCAGTCCCACCTGAAGCTGTGGATAGCCCCAAAAGCGGGAAGCCCTGGAGGGGAGGTCCAGCTGGAGCAGGTGACAAGAATCTTCCTTAAAACACACACACACACACAGACACCCTCAGCCACATCGTGGCCAACTCTTCTGATTGGGATTGAATCACTGATGCAGCAAGATGCTCAGGATGACACAGCAAAGCTGTAAATAAATGGCTCCCAAAACCACTGTGCCTACCCTCCTCTTTCAACCCTTTTCTTTTTACTCTTAGAGGTTACCTTAGGATCGCTCTCAGGCCAACTGAACCAGAAGGAACGGGTAGGAGGTGGGTCACTGCAGGATACACAGAGAAACTACCATGGTCCTTGACTCGTTCCAACCTCCCTTCCTGTTCCCAGCAGACCACACACAAGCTCATACACATGCATACATGTGCTCAAACACACACGTGTGTAGAAGCACTTGCAAACACATGCATGCACACATACATGCACACACATGCACACATGTGAGCAAACACATGCTTTCACACATGCAATGTATAAATAAACCACAAACAGTGCACATACCTGTCATGCCTGCCTGTATGCACATGTATACACATGTGTGCGCACATGCATTCACACACACCCACACTCCACTCATGTCTCCTCACTGGCACGCAGGGATTACTGAGTCCACCTGCCTCCTATGTGAATGGCCAACAAATCAGTCTTAGGGGCTCCACTTATGGGCGAGGAGGGAGCAAGGTTAAGGAAAATTGGAGCTAGACCCTGAAACTGGATGGGAGAGAATAACAGAGAACTGGGCTACAAAACAGCAAACCCAAACCCCACGTTACCATTCTCCCTCCCCCACAAAAACAACTTTCTTGTGAAGAAGAAAAACTAATTCAGAGCACCGTAGAGTGTCTACTTGTGAGTCCTGTCCTGCCCCCTGCATCGCCTGCGGCTTTGATGGGTTGACCCTGAGTCTTTCAGCTGATGTCAATGGTTAGTGCTGGGTGGAATACTCAGCTTGTAACTTGGTGGACAAAGCCCAGGTGCCCTACCTTGGAACCCGTGTGTGATTTTCAAAGCTGTCTATGGGTAGCTTGGTCAGAGGGGAAAAAAGCAACAGGATCAACATTTACAAACAGGGCCTGGAGCTCCCATGTAGCTGACTCGCATCATTTCTGTCTTTTTCCTGGGCAACAG
Seq C2 exon
TTCTGGCAGCACAGTGAGTGGCTGGACGTGGTGATCGATGACCGCCTGCCCACCTTCAGGGACCGCTTGGTTTTCCTCCACTCTGCCGACCACAACGAGTTCTGGAGCGCCTTGCTGGAAAAAGCCTACGCCAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000135773:ENST00000271971:3
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(13.2=100)
A:
NA
C2:
PF0064816=Peptidase_C2=FE(14.9=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
- Autistic and control brains
- Pre-implantation embryo development