HsaINT0027367 @ hg38
Intron Retention
Gene
ENSG00000137225 | CAPN11
Description
calpain 11 [Source:HGNC Symbol;Acc:HGNC:1478]
Coordinates
chr6:44172302-44173073:+
Coord C1 exon
chr6:44172302-44172420
Coord A exon
chr6:44172421-44172939
Coord C2 exon
chr6:44172940-44173073
Length
519 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAAG
5' ss Score
6.66
3' ss Seq
TGTGTGTTTGCTACCCACAGATT
3' ss Score
9.7
Exon sequences
Seq C1 exon
GGGACTGCTGGCTGCTGGCTGCCATCGGCTCCCTTACCACCTGCCCCAAACTGCTATACCGCGTGGTGCCCAGAGGACAGAGCTTCAAGAAAAACTATGCTGGCATCTTCCATTTTCAG
Seq A exon
GTGAAGGACAGTGTGAGAGCCACTGTGGCTTTGTTGGGGGCGGGGGAAGAATCATATATGCTTTGAAGTTTACCTTCTTTCCTTTTGAAAAATAGCATTTATTAGGGTGGGTTTTGGACTAATTATCAGAGAAATATCTGCCCACCAAAGAAATCATGTAAGCTAATTTTTTAAGTCCCAAAAGAAAATAGTTGTTAGCAATTTGTGGCTCTTTCTCCCTTCTCCTTCTCTTCCTCTCCACTGTGTGTGTGGGTGTGTGTGACACTGGTAGTCTCTGTCACATAATTTTTGTAATCTGCCCCTTTGACTTAGCAATGTGTGGACAAATTCCCCTCTGGAGACCGTGGCAGAAGCTGGAGAGGAGGCGGGGCCGGGCTCAGGCTTTGGGTTGCCTTTCCCTCTCTATTCAGTGATTCTGGAGAGTGGAGCCTCTGACACTGGCGTGTCATCAGGTCTGGCCACTAGGAGGCGCTTGATGATAGGGTTCCCACGCAAGGGGTGTGTGTTTGCTACCCACAG
Seq C2 exon
ATTTGGCAGTTTGGACAGTGGGTGAACGTGGTGGTAGATGACCGGCTGCCCACAAAGAATGACAAGCTGGTGTTTGTGCACTCAACCGAACGCAGTGAGTTCTGGAGTGCCCTGCTGGAGAAGGCGTATGCCAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000137225:ENST00000398776:5
Average complexity
IR
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:
PF0064816=Peptidase_C2=PD(20.3=88.2)
A:
NA
C2:
PF0064816=Peptidase_C2=FE(14.7=100)
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:
GACTGCTGGCTGCTGGCT
R:
GCATACGCCTTCTCCAGCAG
Band lengths:
248-767
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