HsaINT0027535 @ hg19
Intron Retention
Gene
ENSG00000203697 | CAPN8
Description
calpain 8 [Source:HGNC Symbol;Acc:1485]
Coordinates
chr1:223722681-223724382:-
Coord C1 exon
chr1:223724323-223724382
Coord A exon
chr1:223722746-223724322
Coord C2 exon
chr1:223722681-223722745
Length
1577 bp
Sequences
Splice sites
5' ss Seq
AGAGTAAGT
5' ss Score
9.35
3' ss Seq
TTTTCTATTTAAATCTTTAGGAA
3' ss Score
9.43
Exon sequences
Seq C1 exon
AGGATTCTGAGATTACTGCCAATGCACTCAAGATACTTTTGAATGAGGCGTTTTCCAAGA
Seq A exon
GTAAGTTCCTTCTTGGGGTCTTTCAGAAAGTCCGTAGGAGATGCTGGGGCAGGGTGAGGGATGGGTAGGCAGGCATTGGGCTGGCAGCACCACAGGTGGGAGAAAGGGCATTGGTGTCTGACCCCAGGAGCCCTGATTCAGTCCAGCAAGACAAGAGGGGAAGAAGGAGAGGCAGAAGACGGGGAGGCGAGGGTGGAGGTGAAGGCGGGGCTGGTGCTGGCAAGCAGCCAGCACCTGAAGGAACAAAGCTCCATAGTGTCAAGTGAAATTGCAGGCTGAGTCCCAGGAGAAAAAGAGCTGGGCTGGGATTGACTTAAGTGAATTTTTTTCACAAAATTAATAACTTGGATACTGTGGAAACCTCTGCAGATGAAAGATCTAGTTCTGTAGCTCATCTTGAGGGAAGGAGGAAGGAAGGGATGATTCTGACTCTCCTAGACTGTCCTCAGTTCCCCATCTTCAGATTTTTGCAAGCCTCAGAGCTGTCAGGAGGAAAGATTTGCATCTCCCCTCTGAGCCCCAGCCCACAGGAGGACACAGGGAGCTGGTTTCTTTCCGGGTCCAGGGATGGGCCAGGTTAAGTCTTCCAGTGAGTGATGGGCTCTCATTCACTCACTGCAGCAGGACAGGGCTTGAGAATGCAGGAAGCAGGGGCTTGGCCCAGGAGCCAAGTCATACCCTTCCCAGGGACGAACCCAGGGCTGAGCAGATGGATCCCCAGGGCTCGGAGCACAGGCCCGTCTCCTCTCCACACCACTCTTGCTCCTGCAGTTGTTGAAGAGTGGAGAGAAAGAGAAGGGGTTGCAGGGTCTTTGGCACCTGTCTTGGCTCCCAGGTATATGGAAGGTGAGGGTGGAGGCCAGGGATGGAGCTCCAGTGACATGCCTGCAATTTAGTAAGGAAGGATAGCTGCTGTCATTGAGTGGCTGTGTGTTGTGATTACAAGCTCAGGCTGTGGAGCTGGCTGGCCTGCATTTAACTCCTAGCTTTGCCCCCTACTGGTTGTGACCTTGAGCAAATCATATAACCTCTCTGGGACTCAGATTCCTGATCTATAAAGTGGGTATAATGATAGCATCTACCACACGGAGTGATTTTGAAGAGTAGATGTGCAGTGCTTATAACAATACCTAGCCATATAAAGTTAGCTGTTTTATTAAGAACTTATCATATATCAAGCCTGGGCTAAAACTTCACTTTCATTATCTCAGTTAATACCCAGCCAGTCTTTGGGGCAAGTATGGTCATTGTTACTATCATGATTATTCCCATTTGATGGAGGAGGAAATTAAAGCTCAAAGATATTAATTTGCTGAAGTCTGTGGCTTGTGGGGAGCCAAGCCAAGGTTCAGATGCTGTACTTGGATGCTGGTGCTTGTCTGTTCTATCTCCCACGGCACCAGGAGGCTCAGGCGTATCTGCCCACAAGCCTGCCATGATGCTCTCCCCTTTTGGCAGAGACCAAGTTCGGTTCCACACCCTTGGATGGTATCTTTGGAGGTCTTCTACCGTGGAGGTTCTTTCCCTCACCTTCAAATGATCCGATTCCCACTCCCCTTTTCTATTTAAATCTTTAG
Seq C2 exon
GAACAGACATAAAATTCGATGGATTCAACATCAACACTTGCAGGGAAATGATCAGTCTGTTGGAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000203697-CAPN8:NM_001143962:11
Average complexity
IR-S
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:
PF138331=EF-hand_8=PU(29.3=85.0)
A:
NA
C2:
PF0003627=EF-hand_1=PU(31.0=40.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
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
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)