HsaINT0027560 @ hg19
Intron Retention
Gene
ENSG00000135773 | CAPN9
Description
calpain 9 [Source:HGNC Symbol;Acc:1486]
Coordinates
chr1:230891083-230895376:+
Coord C1 exon
chr1:230891083-230891152
Coord A exon
chr1:230891153-230895257
Coord C2 exon
chr1:230895258-230895376
Length
4105 bp
Sequences
Splice sites
5' ss Seq
TGGGTGAGT
5' ss Score
8.73
3' ss Seq
TTATGGCTTCCATTTTGCAGGAG
3' ss Score
8.42
Exon sequences
Seq C1 exon
GAAATCGTGAAAAACCCAGAATTCATTCTTGGAGGGGCCACCAGGACTGATATCTGCCAGGGAGAGCTGG
Seq A exon
GTGAGTGTAAGTGGATGGAGCATGGCGAGAGGGAGGTTGAGTCACTGGGACAGGCAAGCAACTGCAGCATGGGGTCCCTGAGGACCCAAGAGGCACGGGGCTGGGGGAACAACACTGCTTCGGCCTCTGCTTCCTCACTCCCTCTGAATGGAGTCCAGTGGCCTCAAGCCCCTGCACCTCCGTTCCTCTAGAGTCAGACATGCCTGTGATGTGGGGCTCACAGCCCCGGAGTTTACAGAGGAAAGTGACACCCAGCAGCGTTGGTCGGGCTCTCCTACACCACCACAGTAGCTAACACCTGCACACATGAACTCAGTCACCTGCGAGGTACTCTCCCCAGCACACATTGCCTCATTCCATCTTCACAACCCACCCTCCTAACGTCACAGATGAGGAAATGGAGGCTGAGGAAGGCTAAGTAACTTGTCCAAGGTCACAGAGGTGGTAGACAGGCAATCAGGATTTGAACCCAGACACTCCAGCAGCAGAGCCCTTACTGCTAACCATTATACACACCCTGGGGAGCCGCTCCCCAGCAATCCAGTCTCCCTCCTGCAATGAACCTGAGTGCACCTCAAGTCACTCAAATTGGGTCCTGCATTTTAGGACTTAATCCAACTGGGCTGGGTTTACCTTTGTTCTATCTATGAAAGACAGAGAAAGTGAGAGAGCGAGAGACTTTCTTTTAAAAAATACCAGTGAAATCAGCCTAGAGAACAAACCACTGCAAGCTTGTGTGGACCCTGACTTATTTCTAGCTGAGGTTGTCACTGTGGTCTATTGGTTAAGAAAGGCCATGCTGGAACCTCCATGCTGAGCAACTGAGCTATCCTAAACACAAGATCCAAAGTCACAAACCTAGACTGATGTTAGTTAATTAGCTAGACAGAGAGACAATTGAGAGAGAGAGAGAGAGAGAGAAGCAAATGGATAGATAGATAGAAACATAGATAATAAGTAATAGATGATAGGTAGAAAACGGATGCATAATTAGATAGATAAATAGGTTGATAGGTTGATTGATTGACTGATAGACCATACAAAATAAATATATAATAATAGATAGATGGTAGTAAATAATGATAGGAAGGTAGGTGGGTAAATACATGGATGGATGGGTATAGATAGATGATGGATGATAGACGGAATTACAGTTGACCCTTTAACAACATGAGTTTGAACAGTGCAGGACCACTTCTAAGTGGATTTTTTTTCAACCAAACACAGACAGAAAATACCGTGTTCCAGGCTGAGCGTGATGGCTCACACTTGTAATCCCAGCACTTTGGGAGGCCGAGGCAGGAGAATCGCTTGAGCCGAGGAGTTCAAGACCAGTCTGGGCAACATAGTGAGGGCTCGCCTCTACTAAAAATTAAAATTGAAAAATTAGCCAGGCTTGGTGGTGCATGACCATAGTTCCAGCTACTTGGTAGGCTGAGATGGGAGGATTGCTTGAGCCTGGGAAGTTGAGGCTGCAGTGAGCTGAGATCATGCCACTGCACTCCAGCCTGGACAACAGAGTAAGACACTGTCTCAAACAAACAAAAAGGAAAAAAAGGAAGGAAAGAAGGAAGGGAGAGAGGGAGGAAGGGAGGGAGGGAGGATGGAAGGAAGGAAGGAAGGAAGGAAGGAAGGAAGGAAGGAAGGAAGGAAGGAAGGAAAGGAGAAAATATACTATTCCAGGATTTGAAACCCGCATATACAGAGGGCTGACTTGGTATAGGCAGATTCCACAGGGCTTACTGTGGGACTTGAGTATGCACAGATTTTGGTATACACAGGGGTCCTGGAACCAATCCCCCATGTATGCCATATTCTAGATACAATGTAGACTTTTCAAAAGGTTTACATTCAGGTGGTCCTTCTCCAGGAGATCCTCCCTGCCGCTGCCCACCTCTCCCCCTCTTCCTCTGCCTCCCTTCCCCTCGACCCCGTAGTCCTCCATTGCTATCCAATAGGAAATCATTCTACTGGCTCCTTTGTTTTTCAAAGTTTTGGTTTGTCACATTGGCATAAACATATATTTGGAGTTACAACCTTATATTTTACCTTAGTGGATGGTTGATTCTAAAGATTATTTTGTAACACTTTTACTACACCAAAGTACTGTACATGGCATATATATGTTATAAAGAATAACAAGAAAATGAACAGCCGTGATCTGTTGCCACCCACAATAAGAACTAGAACATCTGGTCATGTAGAGTGCTCACACCTGTAATCGCAGCGCTTTGGGAGGGGGAGGTGGGAAGATCTCTTGAGCCCAGGAGTTTTAGACTAGCCTGGGCAACATAGCAAGACCACATCTCTATCAAAAAAAAAAAAAAAACTAGAACACACTTGGAACAGCATCAAGGCATGCTGTTATCTGCAGGGGGTGGGGGTAGGGGTGGAGCTGGGTGAGTGTGAGGGGATGGAGCATGGCGAGAGGGAGGTTGGATTGCTGGATCAAGAGCGACTGCAGTATGGGGTCCCTGAGAACCCAAGAGGCACAGCGTTCCCCCTGCAGTGAGCCGAGATGGTGCCACTTCACTCCAGCCTGCTCCTCCCATAGTGCCCTCTGCTCTGCACCACCCAGATAGCCGAGCAACACGCTGACCCACAGAGGGCACTTCTTCCAGGCACAGCTGGGTGGCCAGCCCCATCCATCTGCCCAGGCCCAAGAGAGAGAAAAGCAATCTTGTTTTGGCTTCTCAATCTCCCCGCCAAAAGCTCAGAGCATTTCTGGCTGAAAACACGTGAGGTGTTGAGTTCTCAGGCCGGAAAACACTCATTTTCCTCAACTGGGCAAAGTTGAAACTTGGAGGAGAGCTGGGAAAGGTCAGCCCACAGCAGAGGTCACTCTATTAGACTCCTGTTGGCCTGGCCGCCCTGAAGCTGAAAGCAGACACCAAGTCTCTCCTTATCTTTGCATCTTCTGCGTGGCACAAGGTCTGCCACCCTAGAGGCACTTGGTAAAGTTTGCTGAACAAACGATCCTGCAGGTTCCAGCCATGTCACTTCCTAGTAGCATCTCCCAAAGCTGACCTGAGGCTCCCAAAGACCAGCAGATGCATTAGAAACCAATCCTTCTGTGCTCCAGCTAAGGCTGGGGGTGGCTTGTACTCTGCTGGTGACACCTCTCAGAAAGCCAGAACCAGGGCGATTCGGAATTAGCTTTCCCGATGTTCAGCCCTGGCGAGTCTCTCTTGCCTGTGTCAAACAGCCAGAAAGGGCCATATTACAATGTCCCAAGCCCAGTGACATACGGTGCTTTCCAGAAATGTGAACTCAGAAACTGCCAAGCTGAGTGTGATGGGCTTTTAGGTTCTGATGACGTTGATGTTGTCTACTGAAAACAAGTGAATCTGGATAAAGGTGATTCGGATAAATGGATCCTCCCAGATATCTGCTTACACAGGCGGCATCTGAGACACTGTGAGGCACACACCAGACACAGCCCACACTCAGTGTGGGCAAAGGAATGCCTCCAGGAGTCTGGAACAGCACAGATAGCACAGATAAAATCATGTTTGATGTTTGACTTCACTTTTTAGTTTTCCTCCAGATGTGTGTTAACATGAAGACACAGCTGGGAAGTTCAGTAGGTCAGTCAATAAATCTTGAAAATGCAAGATAATTTAAAGCAAATGGAGCCACCACGGAGATACCATTATCTGTAATTAAGCTGAGTCTGGGTTGGGGCTGCAGGGAGATTTCTAACCACCCTCCCAAGTACTGCCGAACCACTTGGGTGGCAGCTATGAAATGTCTGCTCGCCCAGCCCGTGCTGACACTGATGTATGCAGTCTTGGTCCTCTGGAAAGGGAGTTGCTGGAATTCACAGAGCTGATGCATCAGGCAGCCATATGTCTGAAACCCAAGTAAGCATGTCCTATAACAGTGCCAAGAAGGCAACAGCTGTTTATGATAGACGGGCAGAGAAGAGCAGGCAAGGGAGGCAGAAGGGGAGGAGAGAGTTATTTGTTGGTGTCCTGTCTGTTTTTAAACAGGTAGAAAAGATGTGGCCACATCTGAAACTCCCCACATCCCCTTCTGACACAGAGTTTTCCTATTTGCTGTGAAATAGCAATGAAAATTGTGATTTATGGCTTCCATTTTGCAG
Seq C2 exon
GAGACTGCTGGCTATTAGCCGCCATCGCCTCCCTTACGCTTAATCAAAAAGCACTGGCCAGAGTCATCCCCCAGGACCAAAGCTTTGGCCCTGGTTATGCCGGGATATTCCATTTCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000135773-CAPN9:NM_016452:2
Average complexity
IR-S
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(7.8=100)
A:
NA
C2:
PF0064816=Peptidase_C2=FE(13.2=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Cow
(bosTau6)
No conservation detected
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
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)