HsaINT0027472 @ hg38
Intron Retention
Gene
ENSG00000092529 | CAPN3
Description
calpain 3 [Source:HGNC Symbol;Acc:HGNC:1480]
Coordinates
chr15:42411287-42412317:+
Coord C1 exon
chr15:42411287-42411345
Coord A exon
chr15:42411346-42411746
Coord C2 exon
chr15:42411747-42412317
Length
401 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAAG
5' ss Score
8.27
3' ss Seq
GATCTTGGGACTTCTTTCAGTGG
3' ss Score
4.86
Exon sequences
Seq C1 exon
GAGCTTTTCATGCATTTGACAAGGATGGAGATGGTATCATCAAGCTCAACGTTCTGGAG
Seq A exon
GTAAAGCATAGGCACAGCACATTCCCCCTACACATTAAAACTCAAGGTGGAGGGGTCAACGGGGCGGACTGGACCCAGGGTGTGCTCCTCATTTCCACACAGTGGTGGAGGGAAGGGATAGGAACAGAACATGGAGGGAGGCTCAGCAGGCTCCCAGGACACATGCACTTGAGGCCCAAAAGGACCTCTGCTCCCCCAGTCACTTGATGCGGGAAAACATGCACCTTCTTAGGGAAGATCTAGGAGAAAGGAAACAGTAAGCCACTGCTTCTTGGAAAATCTTCTGGGGGTCTGACCTGCTGGGACTGTTCCCTTTCCTCTTGCCCCGTAAGATTCCTAGGGCGGGGGGGGGGGGGGTCACTCTTTTCTGATCTACATTCTGATCTTGGGACTTCTTTCAG
Seq C2 exon
TGGCTGCAGCTCACCATGTATGCCTGAACCAGGCTGGCCTCATCCAAAGCCATGCAGGATCACTCAGGATTTCAGTTTCACCCTCTATTTCCAAAGCCATTTACCTCAAAGGACCCAGCAGCTACACCCCTACAGGCTTCCAGGCACCTCATCAGTCATGCTCCTCCTCCATTTTACCCCCTACCCATCCTTGATCGGTCATGCCTAGCCTGACCCTTTAGTAAAGCAATGAGGTAGGAAGAACAAACCCTTGTCCCTTTGCCATGTGGAGGAAAGTGCCTGCCTCTGGTCCGAGCCGCCTCGGTTCTGAAGCGAGTGCTCCTGCTTACCTTGCTCTAGGCTGTCTGCAGAAGCACCTGCCGGTGGCACTCAGCACCTCCTTGTGCTAGAGCCCTCCATCACCTTCACGCTGTCCCACCATGGGCCAGGAACCAAACCAGCACTGGGTTCTACTGCTGTGGGGTAAACTAACTCAGTGGAATAGGGCTGGTTACTTTGGGCTGTCCAACTCATAAGTTTGGCTGCATTTTGAAAAAAGCTGATCTAAATAAAGGCATGTGTATGGCTGGTC
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000092529:ENST00000318023:22
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0003627=EF-hand_1=FE(76.0=100)
A:
NA
C2:
PF134051=EF-hand_6=PD(14.8=40.0)
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:
TCATCAAGCTCAACGTTCTGGA
R:
CAAGGTAAGCAGGAGCACTCG
Band lengths:
356-757
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