HsaINT0027487 @ hg19
Intron Retention
Gene
ENSG00000092529 | CAPN3
Description
calpain 3, (p94) [Source:HGNC Symbol;Acc:1480]
Coordinates
chr15:42676681-42678154:+
Coord C1 exon
chr15:42676681-42676750
Coord A exon
chr15:42676751-42677876
Coord C2 exon
chr15:42677877-42678154
Length
1126 bp
Sequences
Splice sites
5' ss Seq
TAGGTAGGA
5' ss Score
7
3' ss Seq
TGTCTTACTGCCCCCTATAGACG
3' ss Score
7
Exon sequences
Seq C1 exon
GAAATTTGCGAGAATCCCCGATTTATCATTGATGGAGCCAACAGAACTGACATCTGTCAAGGAGAGCTAG
Seq A exon
GTAGGAAAGTGCCTCAGGTCAGATCCTGCCAGATGATCAAGGGGTGATTACAAGGTGTGATCCCCTTCCAGGAGGTAAAGGGACAATCTGTGCTTGCTTCCAGTAACTTTTTGGAAGATTTTTTATAACAGTTGCTTTATGGTCGTTTATCTACATGCTGGCGATTGCTTCATTTCCTCCTACATGCCTCTTTAGCACTCTGCCATGCATCACAGGGGGTATCTGCATCCTGTGGCCTCCTCTCCAGTATCTCAAGGACACTTACATACCCCACTCAGCATGACAAAAGCCCTGCTTTTCACTGTATCGTCTTTCTTGGAAGACAGCTCTGTGACTGTGCACCAAGCATGCCCCTTGGGCATGGAGATTCTAGATACACACACAAAAGGCATCGCCAAGGAAAGCACTTGTAACTGGAACCCTTGTTTAAATTGCCCCAGCATAGCTCCATCTTAAAAGAGTCTTTCCACAAAGATGGCATCCGCCATGTGGATGAGCATCCAATTTTCTCTTTGATTGGTTAGCTTGACTGCTCCATCTGATCTTCCTCTCTCTCGACCTCTTGTTCAGAAAGTATTGTCTTTGGTGTGGACTATAAGCAAGCTCTGTGAAGTAAAATTGGAGAGAACACCAACAGAAACAATTTAAATTTGAGGAAAAGGGGGCACCTAAGACCAAAGGAATTTGGCTTATTTCATTCCAGAAGGGGAGGCTGAGAATAAATCAGATGAATATCTGGGTTCCTGCACCTGAGGGAAGGCTTCCTGCAGAGCCCTGGGCATAATAATCTGGGACCTTCAAACCAATAACCTCTTTCCAAGGAAAGACTGGCTGCTTCCAAGGAGGGTAGGGGAGAGTGGCTGCAGGCAGCTCTCAGTCTCCCCTGCACACTCTCAGTTGCATTTCACTTAACCCATCCTCCTTAGAAGGCAGCTCTGTGACCAGGTACACCCCCTATTATATATATATATACACACACAGAGAGAGAGAGAGAGAGAGAGAGAGAGAAAGAGAGCAAAGTGTTACCTCCAACTACATACAGTACTCTGTCAGAAAAGAGGTTCAGAGAATAAGAAAACGTCCCGAGCTCATTCCGTTGCCAGCAATGTCTTACTGCCCCCTATAG
Seq C2 exon
ACGGGTTCCAGGGCAGCTGCCTACCTGGCCTTCCTTCCAATACAAATCATCTTGGTGGATGGTTCTCTGAGGCTCAGTCTTCGCTGAAGTCAGAAGAGGAATTGGACTCACATTGCAAAGGCACAGGGCAGGGCAGATTTCCTACAGGTGTTAGGAAGAACAACCCAGTTATGATCACCTACTGCTCTGTCTCCATTGAGGCCTAAAAAGGAAGTGAGTTTATACTGCAGTTGGAGGAACTGCCTGCAGCCTTGAGGAAAATGTCTAGTCACAAGGGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000092529-CAPN3:NR_027912:6
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.265
Domain overlap (PFAM):
C1:
PF0064816=Peptidase_C2=FE(11.3=100)
A:
NA
C2:
NA
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAAATTTGCGAGAATCCCCGA
R:
TGTGACTAGACATTTTCCTCAAGGC
Band lengths:
343-1469
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
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)