HsaINT0027554 @ hg19
Intron Retention
Gene
ENSG00000135773 | CAPN9
Description
calpain 9 [Source:HGNC Symbol;Acc:1486]
Coordinates
chr1:230923268-230925935:+
Coord C1 exon
chr1:230923268-230923348
Coord A exon
chr1:230923349-230925877
Coord C2 exon
chr1:230925878-230925935
Length
2529 bp
Sequences
Splice sites
5' ss Seq
GAGGTAGGA
5' ss Score
8.24
3' ss Seq
AATTGTCTCCACTTCAACAGGAC
3' ss Score
7.78
Exon sequences
Seq C1 exon
CCTCCAAAGCCAACTCCACCTGACCAGGAGACAGAGGAGGAGCAGCGGTTTCGGGCTCTGTTTGAACAAGTCGCTGGTGAG
Seq A exon
GTAGGACATGCCCCACTTCCATCTCCCCACCAGGCTGAGGGCCTGGACCTGCTTCCTAGCAAAGGGTTGCAGTCGTGGGGTTGGTCAGCAACGTCATCCTGAGGCATGATGGAGCTTGTTGCAAAGTAAGACCAGCACTGATCATTCAAGGCCCAAAGACCACCCTGTTTACAACATTTACTTACACAGTCTGCGGCTGTGGATGGGGCCAGTGAGCCCAAAGAAGCTTGGAATAGGCCCAGACGCTTTGTTTTTTAGTTCTGTTTTGCTTTAGACAGAGTCTCACTCTTTTACCCTGGCTGGAGTGCAGTGGTATAAGCCTAGCTCACTGCAGCCTCAAACTCATGGGCTCAAGAGATCCTATCACCTCAGCTTCCTGAGTAGCCGGGACTATAGGCACATGCCATCATGCTTAGCTAATTAAAAAAATAAATAATAAAGAGTCTTGCTATGTTGCCCAGGCTGGTCTCAAACTCCTAGGCTCAAGCAATCCTCTGGCCTCAGCCTCCCAAAGTGCTGGGATTACAGTCATGAGCTACCACGCCTGGCCCCAGGTGCTTTCTTTGGGAGGCTAGAGCAAGCCTTGAAGAGGTGACTCCTTTGAACTCTGCCTGAAAATCACTGCCATTAGAATACTCTGTTTGCTGTAGTAAAGGGGATCATGTTCAAGGAGGTCCCTATTCAATTGCAACTTCCTGTCCCCCACCCTATCCTAGCTCTTTCCACTGCTCAGCTTCCTTTTTAGGGACACTGGATGGAGCCTCACACAGATCCAGGCTCTTCCTCCACCTGCTGGGGTCAGGGGAGGGAAGTCTTTCTAGAAACTGCCCCAGAGGTGCTCTCTTGGAGCCATAAATACAATGAGCTGATGAACTAATTCATGTCAAGGTGCTAATGACTCTATTAGCTTCATGTGTTTCCCCAAACTGGGGTTCCTGAATTATGAAAGGGGTCACCTGGAGGGGTGATATCTAAACCTAGGGGCTGTCTGATGGTAGTATATTAGGCACTGCAATAAACAGGCAAGGCAGGGAGATTAGGGGACCACAGGATCGGATGGAGAAAATGGGGGCTCATGTGACTGCTTAAAGCACAGCAGGAAGGTGGCTGAGCGCAGCCCTGGGCGGGACAGAGCATGGTGAGGGGGGAAGGCAGTGGTGACCTCCCTGCTCCAGGTGCTATCTGGAGCATGCTGGGTCAGACCCAGCAAGACAGGCTCAGAGGAGTTAAAGAGGTTCATGCGGGTGCGCAGAAGTTGTCAGATGGAGATCCAGAGTTTGGAAGGGAAGCGGTGAATGTTGCAGGAGTTTCAGTCGACCTTTATTAACAACCAAAAAGTACCTCTAGAGTTCAGCCCTCCTTGACTCATGTCCTGCTTTTCTTCCAAGTAGTTGGATGACTTGGGCACATGGCTCCATTTCTCTTTCCTCCTCTTTCAGTGGGGGCCTGGCTGGGGCAGTGCTTTCTTACCAACACCAAACATCCCAAACCCCCATTCCCCAGGCCCAGAGGCTTCAGGACGGACATGTGTTAGAAGCACTCCACAGCATAACACACGGCTAGCGCAAAACCCTGACTAAAATGAGGTCTATGTCAGTGCTACTCAAACACACATGTGCATAAAGTCACCTGGGCATCCTGGGAAAAAAAACACAGATTCCTCATCAATAGGTCAAGAGCATCCTGGGCAACATAGGGAGAGCCCATCTCTGCAAAAATAATCAGCCCAGCATGGTGGTGCATGCCTATAGTCCCAGCTACTTGGGAGGCTGAGGTAGGAGGATTGCTTGAGCATGGGAAATTGAGGCTGCAGTCAGCTGTGGTCACACCACTAATACTCCAATCTGGATGACAGAGCAAGACCCTGTATCAAAAAAAAAAAAAAAAAAAAAAAAAAAGCCTGAGTCTCAGGGCAAGGTCTGAGACTCTCCATTTCTAACCAGCTTCTGGGGTGGGGGCTGCTGAGATTTCCTGGAGTGCCTTAGATCCATGATTCTGAAATTCACCCTTATTCTTAATTCTAAATCAACTCCTAGGTCTTAAAAATAGGACCATATTCTCAGGTCCTCTGATTTCAAGATTCCCTGGGGTAAGCCCCAGATGCGGGACTATTTTAAAGCTCTGCAGGTGGTTCTACTGTACAGAGGAAGACTCAGTCTGGTTTTCCCAAACTGCCTCCAACATAGGAATCATCTGAGGAGCTTAGGACAATTCCAGGAGTTGGTTCTGACCCTCAGGGAAGCTGGGAAACCACTGCCTTGCCCTGCCCAGCTTTTCATGCGCTTTCCTGGGTTGGGATGTCTCTCAAGTTAGGCTCTCTCCTAGTTGGGCTGGCATGTCCCTAAAACATGTGACATATGAGACACATAGCTGCAGCTACACAGGAGATAGGTACATCTGCCCACAGCAGGGTCCTGAAGGCTGGTCTGTCACTGGAGCCAAATGAAGCTCAGAACTGATTTAAAACAAAAATAAACTATAAAAGAAGGTGCCAAGGGCTATAACAAACAATTGTCTCCACTTCAACAG
Seq C2 exon
GACATGGAGGTGACAGCAGAGGAACTTGAGTATGTTTTAAATGCTGTGCTGCAAAAGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000135773-CAPN9:NM_016452:12
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.630 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF138331=EF-hand_8=PU(0.1=0.0)
A:
NA
C2:
PF138331=EF-hand_8=FE(31.1=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)