HsaINT0027330 @ hg38
Intron Retention
Gene
ENSG00000014216 | CAPN1
Description
calpain 1 [Source:HGNC Symbol;Acc:HGNC:1476]
Coordinates
chr11:65210814-65212006:+
Coord C1 exon
chr11:65210814-65210872
Coord A exon
chr11:65210873-65211259
Coord C2 exon
chr11:65211260-65212006
Length
387 bp
Sequences
Splice sites
5' ss Seq
AAGGTGGGA
5' ss Score
6.03
3' ss Seq
ACCTGCCTGTTCTCCCGCAGTGG
3' ss Score
10.85
Exon sequences
Seq C1 exon
GATTTTTCAAAACTCTGGACACAGATCTGGATGGAGTTGTGACCTTTGACTTGTTTAAG
Seq A exon
GTGGGAACCTCCCTGGGCCCATGGTTGGGGAAGAGTTCCAGGCGATCGAATTTTCTTATCTGGCCAGTGTTCCCTGTCCTTTCCTGGAAATGAGCCTGGGCCTCAGAGCCAACCCTGAAGCCCGGGCCACCTGAATCCTGAAAGGCTGGGGTGGGGGTGTCTGGATTCTGGGAAAGGAGCAGGAGGGGAGGTCCAGGCCCTTGGAGGCCCCTATGGGAGCAGCACTCTGGTTTCCCAGGGGTGGAGGAGGTAAGAAAGTAACCCCTCCATGAGGTTCCTGAGGTGGCTCCTGAGACGTGGAGTTGGGGGCTGGACCTGGGGTTTGGGTGGGGAAGAAGCCAGGGAGCCATTTCTGCGGCCCCAGCTGACCTGCCTGTTCTCCCGCAG
Seq C2 exon
TGGTTGCAGCTGACCATGTTTGCATGAGGCAGGGACTCGGTCCCCCTTGCCGTGCTCCCCTCCCTCCTCGTCTGCCAAGCCTCGCCTCCTACCACACCACACCAGGCCACCCCAGCTGCAAGTGCCTTCCTTGGAGCAGAGAGGCAGCCTCGTCCTCCTGTCCCCTCTCCTCCCAGCCACCATCGTTCATCTGCTCCGGGCAGAACTGTGTGGCCCCTGCCTGTGCCAGCCATGGGCTCGGGATGGACTCCCTGGGCCCCACCCATTGCCAAGCCAGGAAGGCAGCTTTCGCTTGTTCCTGCCTCGGGACAGCCCCGGGTTTCCCCAGCATCCTGATGTGTCCCCTCTCCCCACTTCAGAGGCCACCCACTCAGCACCACCGGCCTGGCCTTGCCTGCAGACTATAAACTATAACCACTAGCTCGACACAGTCTGCAGTCCAGGCGTGTGGAGCCGCCTCCCGGCTCGGGGAGGCCCCGGGGCTGGGAACGCCTGTGCCTTCCTGCGCCGAAGCCAACGCCCCCTCTGTCCTTCCCTGGCCCTGCTGCCGACCAGGAGCTGCCCAGCCTGTGGGCGGTCGGCCTTCCCTCCTTCGCTCCTTTTTTATATTAGTGATTTTAAAGGGGACTCTTCAGGGACTTGTGTACTGGTTATGGGGGTGCCAGAGGCACTAGGCTTGGGGTGGGGAGGTCCCGTGTTCCATATAGAGGAACCCCAAATAATAAAAGGCCCCACATCTGTCTGTGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000014216:ENST00000533820:21
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:
PF134991=EF-hand_7=FE(20.9=100)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGGACACAGATCTGGATGGAGT
R:
CGAGGCAGGAACAAGCGAAAG
Band lengths:
350-737
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