HsaINT0027325 @ hg19
Intron Retention
Gene
ENSG00000014216 | CAPN1
Description
calpain 1, (mu/I) large subunit [Source:HGNC Symbol;Acc:1476]
Coordinates
chr11:64976794-64977388:+
Coord C1 exon
chr11:64976794-64976858
Coord A exon
chr11:64976859-64977319
Coord C2 exon
chr11:64977320-64977388
Length
461 bp
Sequences
Splice sites
5' ss Seq
GATGTATCC
5' ss Score
1.64
3' ss Seq
CCTTCTTAACGGCCACCCAGCGT
3' ss Score
2.79
Exon sequences
Seq C1 exon
ACAAAGACCTGCGGACCAAGGGCTTCAGCCTAGAGTCGTGCCGCAGCATGGTGAACCTCATGGAT
Seq A exon
GTATCCTTCCGTTTGCTTTTGTCTCCTGAGTGGGGTTTTGGGTGGAGGTATCGGTGCTGGGAGAACTGTCCCAGGACAGCACAGAGAACAGGACAGAGCCATGCGGAGTGTGGACACACAGTGCCCCATGCTCAGATGTCTCCCTGGACGTCTTCCTGTTGGTTGGGAGGGAGAAACTGAGGCACAGACCTGTGTCAAGTGAAAGGTGGAGCAAGACCTGGGTCCCCATTGACCCTGAGGCTGGTGCTATTTCTGACCCCTCCCCAGCCCACTCCACTGCAGCCCAGCTCAGAGAATAAGGCAAGCCCGGCTGTGGGCTGACTGTACATGGCTTTTGCTGCTTCTCCTCACCCAGCCCCAAGTCGACTTGCCGGCTCGGCGGCCATCTCCCCTTCTGCACAGTTGCCCACTCTCCCATGACTGGTCTAAGTGATGGAATTTCCTTCTTAACGGCCACCCAG
Seq C2 exon
CGTGATGGCAATGGGAAGCTGGGCCTGGTGGAGTTCAACATCCTGTGGAACCGCATCCGGAATTACCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000014216-CAPN1:NM_005186:17
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:
PF138331=EF-hand_8=FE(34.4=100)
A:
NA
C2:
PF138331=EF-hand_8=PD(29.5=78.3),PF134991=EF-hand_7=PU(5.5=21.7)
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
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)