HsaINT0027317 @ hg38
Intron Retention
Gene
ENSG00000014216 | CAPN1
Description
calpain 1 [Source:HGNC Symbol;Acc:HGNC:1476]
Coordinates
chr11:65181194-65182968:+
Coord C1 exon
chr11:65181194-65181410
Coord A exon
chr11:65181411-65182700
Coord C2 exon
chr11:65182701-65182968
Length
1290 bp
Sequences
Splice sites
5' ss Seq
GAGGTAATC
5' ss Score
7.05
3' ss Seq
CAGGCCCATCTGTCCGGCAGGAT
3' ss Score
6.29
Exon sequences
Seq C1 exon
GAAAGTCGGGCCGAACGGGGCAGGGACTTACCCAAGGTCACGCAGCGAGCCCGGTCCCCCTGCGTTCCCCGGGGAGCGCTGAGCCGGGACGCGGCGGTGGGGTGGGGAAGGGGAGTGGCGCGGCCCTGCGGGGTGAGGCTGCCGTTTGCTGAGTGTCCGGCAGGGGTCTGCTCGCTGCCAGCCCGGCCCCTCCTCAGAGCAGCTGCCGCAGCCCGAG
Seq A exon
GTAATCTCGGCCCCGCGCCGGGGCTGGCTGGGAACGGCGGGAGCAGCTGCGGTCGCGCGGAGCGAGGGGAGCTGGGGACCGGGCGGGCCCGGGGCTGCGGGAGGCGGCGCCGCCGCACAATCGCCCCGGAATGCCCGCCAGGGCGCGCGTGGGGTGCGGCCGTCCGGCCCTGCAACTCGAGCTGCTGCCCCTGGTTAAAAATACCCCCTGCCCGGCCCTCCCCCTCCGTTCCCCGCGGTGCCCTTCCGCCGCGCCCCAGCCCCCCCATCCCCCCCCGCGCTGGCCCCTCCCCGGGGACTGCTCTGCCTTTTACTAATTTGTCCTCTCGCGGAATTGGCCCCCGGCCTGCGGAGGGAGGGGCGGGGAGACACCGTGAGTAAGAGATAGTCAGAGACCGTGCCGGAGAGATAAGGGAGAGCCGAGAGGAAGCGGGGTAGGAGCCCCAGGAGGAGGAGGAGGAGAAGGAGAGAGGGAGGGCGGAGGGCGGAGGGGCGGCGGGAGGAGGGCGGGGAGGAGCGCTCTTCCTGGTTGGGCCCTGCCCTGAGCTGCCACCGGGAAGCCAGCCTCAGGGACTGCAGCGACCCCCAAACACCCCTCCCCCAGGTAAGAAGCTGGGTAGCCGAGCCGGGATTCCTTGACCCTGGCCACTGCTCCTGGGCTGAGGGGCTGCCCCAGCACGGTCCCTTCTCGGGGGCCTCTGCGTTCCTGGAGCAGGGGTGGGGGCTGGCGGAGCGGCACAGCCCAGGCGCCTGTCCCAGCCTGGCTCACCGCTGTCCCCAGGGGCTGGGCTAGGGCCCACCAGCTCTGATATCGAGCCTGCTGCGGGGGCCTGAGGAGGGGGACCCCGACCGTCTGGGGTTTTCAGCCCACGGCAAGGGGCCGGTGCACCAGGAGCTTGGTTAGTTTGGGGAGGGGGTTGCAGGCCTGTGAACAGGATCAAAGAGGCCTTCCCTGCTGTGTCCCACCTGCCCAGTTCCTTGTGCTGTCTGGAGGCTCCGCCCTGCCCCACCTGACCTGCTGGCTCACTACAGAGCTGCAAGCCCCTGACAATGGGATCCGGGAAAGGAGAGGTGGCCGGCACGCCTGGGAACTGGGAAATCCCTTTCCTGGATTCACTGGGAGCACCGGGAGGTGGCTGAGAACCCTACTTCTGTGAGGGGAGCAGTGAGGCAGGGAAACCCTAGGTTTGGGGATGGATAAGCAGGGGCAGGAGAGCAGAGCTTGCAGGCAGGAGCCCAGGTTCTAGTCTTGGGAAGGCCTGGGTTCTGAGCAGGCCCATCTGTCCGGCAG
Seq C2 exon
GATGTCGGAGGAGATCATCACGCCGGTGTACTGCACTGGGGTGTCAGCCCAAGTGCAGAAGCAGCGGGCCAGGGAGCTGGGCCTGGGCCGCCATGAGAATGCCATCAAGTACCTGGGCCAGGATTATGAGCAGCTGCGGGTGCGATGCCTGCAGAGTGGGACCCTCTTCCGTGATGAGGCCTTCCCCCCGGTACCCCAGAGCCTGGGTTACAAGGACCTGGGTCCCAATTCCTCCAAGACCTATGGCATCAAGTGGAAGCGTCCCACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000014216:ENST00000533820:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=0.002
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
PF0064816=Peptidase_C2=PU(11.3=38.2)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Cow
(bosTau6)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGCCGTTTGCTGAGTGTCC
R:
GACGCTTCCACTTGATGCCAT
Band lengths:
342-1632
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