HsaINT0027498 @ hg19
Intron Retention
Gene
ENSG00000149260 | CAPN5
Description
calpain 5 [Source:HGNC Symbol;Acc:1482]
Coordinates
chr11:76827272-76829398:+
Coord C1 exon
chr11:76827272-76827349
Coord A exon
chr11:76827350-76829202
Coord C2 exon
chr11:76829203-76829398
Length
1853 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGT
5' ss Score
10.1
3' ss Seq
CAGCCCCTCCCCACATCCAGGAT
3' ss Score
6.59
Exon sequences
Seq C1 exon
CTCGGAGGAGTGGCAGAAAGTGAGCAAGAGTGAGCGGGAGAAGATGGGTGTGACCGTGCAGGACGACGGTGAGTTCTG
Seq A exon
GTGAGTGTGTATGTGCCCTGGGCGTCCGGGGCTGAGGGGGCTTCCCACGGGCCTGGCGGGGAGCACCAGGTGGGGAGTCAGGAGCCAGGCCTCTCCTGCATGCCCCATCATCAATTTGCTGTGTGGCCTTGGACAAGTCACACCATCTCAGAGCCTGTTTCCTCCTCTGTAAAATTAGTTGGGCAGTACCAGGCCCTTTCATCCCCACAGTCCCCTCTGCCGAACTGAGGGGTCCTGGAGCCGCTGTGGCACCCAGACCGAGCCTTTGGCATGCAGGTCAGGGAGCCGTCTAAGAGGTGGGCCCACCAGGATCTCCCCGGCAAGGGTAAGGAGGCATGAAGCACAGTCCAGCACCAGCAGTATGGTGTGGCCAGGGGCACTGGGGCTATGCCCAGCCCCTCTCCAGGAAGCCCTGCCCTCAGCCTGCCTCCAGGGGCCCTCTGGCAGCCTGATTTCTGAAATTAGGTAGCAGAGGCTCCTAGAGGAACTAGCTTCTAAGCTGAGACTTGAGGTACAGAGTAGGCCTTGGTGGGCAAGGAAGAGGACGTGGCTCAGAGGTGAGAGAACACAGCTGTGTTTGAGAAGGGAGCTAAGCAGGTACATGGGTGAGCTGGGAAGATGACAGCAGCTCAGCTTAAAGAGCCCAGTAATTGGCTGGGTACAGTGGCTCATGTCTATAATCCCAGCACTTTGGGAGGTCAAGGTAGAAGGATTGCTTGAGTCCAGGAGTTTGAGACCAGCCTGGGCAGCATAGTGGGACCCCATCTCTACAAAAATGAAAAATTAGCTGGGTGTGATGATGTACCCCTGTAGTCTCAGCTACTCTAGAGGCTGAGAGGGGAGGATTGCTTGAGCCCAGGAGGTTGAGTTTATAGTGAGCCATGATCGCACCACTGCACTCCATCCTGGGCTAAAGAGCAAGACCCTGTTTCAAAAACAAAAAGAAAAACCCCAGTAGTAATAAAAGTTCATCCTGCATTCATCCAGCCTGCATGAGTCCTGAATGTGGGCTAGGCTCAGTGTCACCCTTCAGCAGAACCTGATATGGAAACTCAGTCCCTTCCTGGAGGGGTATTGGCATCCTGTGTGTGCTGGATTCTGTCAGGGCCCCCAGGCAGACTGGGGGCAGATGGCAGTGGTCCTGGCACCCAATGATGAACCCTTCTGCAGGTGTCAGGTCAGCTGCTGCAGGAGGCCACCCAGGCCACTTTGCCAGTCTTGCTCAGGAGTCAGCAGATAAAAACACGGCAGAGCTCCTTGCCTTTAGAAAGAGTTTCTTCCAAAGGCCTTTCTCTTACATGTTCACGGTTAATTCACTGCCCCCTGCCCCCACCAGCTCCCTGGAGGCGTTCACAGTGTGCAGTGACCATAGCAACACCCTGGCCACCGCAGCAGGCTCACCATGGGGTTCCCACCATCCACTTACTCAGGCCTCTCAACAGCCATGGAAGATCCTGGATGCAGATGTGCTTTATAAACTGTACAGGGCAGCAGACAGTAGTTATTAACACCATTCACAATAGTAACAGCCAGCGTTTGCCAGTGCGTGCTCTGTCAGCCGAAAGTTGCACTGCCTGCTTTGATTGCATTACCTAATTCCTTCACTAGCTCTGAGATGGGCACCTGCTGTTAGATTCAGCCTCATTTTACAGGTGAGGAAACAGGTCAAAAGAGAGGTTAAGGGTCTGTGCAATGCCATGCCTGTGCCCTTGTGTGGGCTTAGCTCCCCTCTCAAAGCCAGCTGTGTTCTCTCACCTCTGGGCCATATGGACATATTAGGTTGTTGGGCTGGGGGGCCAAGAGCCTGGGGAGGTGTGGGGGAGGTACCCTGCTCAGCCCCTCCCCACATCCAG
Seq C2 exon
GATGACCTTCGAGGACGTGTGCCGGTACTTCACGGACATCATCAAGTGCCGCGTGATCAACACATCCCACCTGAGCATCCACAAGACGTGGGAGGAGGCCCGGCTGCATGGCGCCTGGACGCTGCATGAGGACCCGCGACAGAACCGCGGTGGCGGCTGCATCAACCACAAGGACACCTTCTTCCAGAACCCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000149260-CAPN5:NM_004055:7
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.333 A=NA C2=0.121
Domain overlap (PFAM):
C1:
PF0064816=Peptidase_C2=FE(8.2=100)
A:
NA
C2:
PF0064816=Peptidase_C2=PD(6.0=28.8),PF0106717=Calpain_III=PU(25.0=54.5)
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:
GAGGAGTGGCAGAAAGTGAGC
R:
CTGTGGGTTCTGGAAGAAGGTG
Band lengths:
270-2123
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)