HsaINT0027496 @ hg19
Intron Retention
Gene
ENSG00000149260 | CAPN5
Description
calpain 5 [Source:HGNC Symbol;Acc:1482]
Coordinates
chr11:76825288-76826634:+
Coord C1 exon
chr11:76825288-76825480
Coord A exon
chr11:76825481-76826440
Coord C2 exon
chr11:76826441-76826634
Length
960 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGA
5' ss Score
8.68
3' ss Seq
GCAACTGTGTCCCTCCACAGGCA
3' ss Score
9.7
Exon sequences
Seq C1 exon
ACTGGCAGGCTGTTACCAGGCCCTGGATGGAGGCAACACAGCAGACGCACTGGTGGACTTCACGGGTGGTGTTTCTGAGCCCATCGACCTGACCGAGGGTGACTTTGCCAACGATGAGACTAAGAGGAACCAGCTCTTTGAGCGCATGTTAAAGGTGCACAGCCGGGGCGGCCTCATCAGTGCCTCCATCAAG
Seq A exon
GTGAGAACACGGCAGTCCCCAGAGGCGACCCCTCCCCTTCACCCTCGCTGACTGAGATGGGAGACAACTGTGACATCCCACGCTCAGGTCAGCTCCTACGTATTCAGACCCTCAGCCTCGTGGGGGAGGGGAGAAGTTGGAAGGTGCAACCCCCTGCCCAGACCCTCTAGGCTGTGAAAAGCCTTTCCCGCACTGTTCAACCAAAACTTCTTTTCTGATCCTCTTGGGTTATGAACGTCTGTGCATCTGAGGGTGGTCCTGATTTCATTACTTGCTCGTGTTTTGGATGAGAAAGCTGAGGCCCAGTGAAAGCCAAGTTCAAACCCAACTTTAGCAGACCCTGTGCTGTGCTGGTAAACTGCCTCCAGCAAAGTAAAAAGCCCCGGTTTGTAGCATTTGCTAATTACTGTGGTGTAAATACTCCCACCATGGCTGATTTCCAACTACCCACATTTAACAACCAGCTATTAACAATATTCCTGGCCGGGCATGGTGGCACATGCCTGTAATCCCAGCTACTCGGGAGGCTGAGGCAGGAGAATTGCTTGAACCCGGGAGGCAGAAATTGTGGTGAGCCAAGATCGCGCCATTGCACTCCAGCCTGGGCAACAAGAGCAAAACTCCATCCAAAAAAAAAACAAAAAACAAAACAATGTTCCTGAATATTTAACAATTCCTGGAATATTTAACAATTTAAATATTCCCGAATATTTAACAACAGCTGAGCCAGTGCACGTGGGCCCCAGCATTCCCCTGGGCTGACCCACTATGGGCACCTTCCTTTACTGAGACTGCTGCCCATGGGGGTTTTAAAGCTCTGTGAACACAGCACTGCCCCATGACTGCAATTCCCATCCCATCCTGTAGGTCCCGTGCAGCCTCCTAGCCCTCCAGCACCTGAGTCCCTGGTCTGGGTTCCAGTGTGGCCCTGCCTCTCTGAGCAACTGTGTCCCTCCACAG
Seq C2 exon
GCAGTGACAGCAGCTGACATGGAGGCCCGCCTGGCGTGCGGCCTGGTAAAGGGCCACGCATACGCCGTCACTGATGTGCGCAAGGTGCGCCTGGGCCACGGCCTACTGGCCTTCTTCAAGTCAGAGAAGTTGGACATGATCCGCCTGCGCAACCCCTGGGGCGAGCGGGAGTGGAACGGGCCCTGGAGTGACAC
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000149260-CAPN5:NM_004055:5
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=0.062
Domain overlap (PFAM):
C1:
PF0064816=Peptidase_C2=FE(20.1=100)
A:
NA
C2:
PF0064816=Peptidase_C2=FE(20.1=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:
CAGACGCACTGGTGGACTTC
R:
TCACTCCAGGGCCCGTTC
Band lengths:
343-1303
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)