HsaINT0027398 @ hg19
Intron Retention
Gene
ENSG00000162949 | CAPN13
Description
calpain 13 [Source:HGNC Symbol;Acc:16663]
Coordinates
chr2:30961266-30964830:-
Coord C1 exon
chr2:30964774-30964830
Coord A exon
chr2:30961324-30964773
Coord C2 exon
chr2:30961266-30961323
Length
3450 bp
Sequences
Splice sites
5' ss Seq
CAGGTATGG
5' ss Score
9.99
3' ss Seq
TCCTTCCTTGTTTGGATCAGAGG
3' ss Score
5.49
Exon sequences
Seq C1 exon
GGAAGCCCTTCAGAACATGGCTCCCAACAAAGCATTTTCAACAGATATGCTCAGCAG
Seq A exon
GTATGGTACCTAGCACCCAGGGGCCTTACGTGGGATTGGAGAAAGGGGACCTGAGGGAGGGACAGCTCTCACAGGCCCTTACTGGGATGCAGAGAGGAGAAGTGACTTGATGGACTATTTTACCTGCCTCTCTTCCTGGATCGTCTCCAGAACTGCTGTGGCTGCCAAGCTCGGTAGAGACGTGGCGCCCCACCCAGTGTCATCCGGGGGACTTCAAGCTGGAATGCAGAGCTTAGAAAGGGAGGGGATAATTATGGGGTGTGAGGTGCATTGCCCTCTAAATCTTTAAACAAGCAATTGGCAGTACCCCGTGAAACCTTTCCTTCTCCTACTCGGCCACCTCCCACCAACCTGGCATCGTTCCTCCCGGGAGCTAGCCAGCTTCAGAAAGCACATACAGCATCCTTGCTGCCAAACCACCTATGTGCACACAGGATTTCCTTAATGGCTTAATAAACTGTTATAAAGAACTCCTTGACTTGTCAGAATAAAATAGCTGCCAGGGGCTCTGCACAATGAGCCTCTTACCGTTAATAATTGTGTTAGTGTGGAAAGTGGAAAGTGATACCGATGATCATCTCTACCCTGCCGCCTTGAACCAGGAAGAGGCCAAGGACAGGAAGGATGGCAGGCCCTGCCTCTGCATTCAGAGGGTTAATGGGGTAGTAGTCACCCAGAAGCAGCCTGGGCCAAAGTAGGGAAAAACTAAGAATGTGGCTGGAATGAGTGGCATGTGTTGCAAAGAGCAGCTGTACACAGGAACACGGACCTCCATGAAGTCAGTACCAGCCCAGGATCCAGGTCCACCATCTGGGCTGATTCAGGAGGCACTTCACTCACTGCATGACAAGGCCGGCCAAGATGACTGCCCTCAGTCTGTAAGCTCCCGAAGGCAGGGATGATATTATATGCATTCCTTGTCCCCAACACTGATCACTGTCCTTGGCCCGAGGAGGTGCTCAGTCATTTCTATTGAATTAAGACAGATCACCTCCCCCAGAGCTGATGCCTGAGTGAATGAAGGTTAGCCCCTGAGGTGGTTAGCAGGGCCGGATTAGGATGCCTGAGACCAAGCTTCCTTCAGTGGCAGGTGGCAAATTCTCACACATGGCCCATGCACCTGTACCTCTAAAATAAAAATGTTTGCCATATGTGAAGATGGGACAGATTTTCTAATCAGGACTTTTCCAAACAACAGCCAAGTTCCTCCTCATAGAGGGTGACTGGTGGCCCATAGGGGGCCTTCGTGGGAATAAGAATAAGACCCCAGTGTGGCATTCTGCCAGATACATGGCTGGGAAGCAGAAAAGAGACTGGATTCCAGCCCCCTTTCACCTCTCAGCCAGGCCCTCTTGAGCAGGGCCCACCTGGCAGTATTCTGTAATCCTACAAACTGTCCTCAGGGTCTGTGTCCTCCAAAGAAAGTTTAAAGCAAAATATTCCTCCATGCACTCACTGTGTCCTCTCTTCTGATCTTTTCTACCACTTTAACTAGATTTAAACTAATACAATGGTTGCCGGGCACGGTAGCTGACGCCTGTCATCCCAGCACTTTGGCAGGCCAAGGCAGGTGGATCGGGAGGTCAGGAATTCGAGACCAGCCTGGCCAGCATGGTGAAACCCCATCTCTACTAAAAACACAAAAATTAGCCGGGCATGGTAGCGCACGCCTGTAGTCCCAGCTACTTGGGAGGCTGAGACAGGCGAATTGCCTGAACCCACGAGGCAGAGGTTGCAGTGAGCCAAGATCGTGCCATTGCACTGCAGCCTGGATGACAGAGCAAGACTCCATCTCAAAAAAAAAAAAAAAAAAAAAAAAAAAAAACCTAATACAATGACTTGATACTACCACCGGTTCTTCCTTCACTGTAGTAGTGGTGACAGCTCTATAACCCAGGGTCTGCCTGTGGGAAAGGAAGGATCCACTTAGACTCTGGGATGAGCTAGGTCTATCCACCAAGTAGCCAGCATTTACCCATCATCCGGACATTACAAGCCCCACTCTAAGCTTTGGGAATCCCAAGGAATAGCTTTTGGGCATCTTGCATTGTGGTGGTTGAGGCAAACATGCAATTTTTTAGGAGACTAAGCAACCCTCACTCTATTCCTACCCTCATCTCCTCAGACTCTTTTGGTTGGTTATGAAGTGCAGGACCCGGGGCAGGCTCTGTCCTCACATGGGAATATGGAGGAAAAAGACACGGTCCATGCCCCAAAGCTGCTTTATAGTGGACGATTCCATGGAAGTTGGAACTCCTCATTAGCATGCTAACTGCTGTTCAAAGCGAGGTGTCCTGAGTCTCTGGAAGAGAAACTCAGTTGATAGTGGGCACTCAACACTAACTTTCCTGATAAAACCCAGAGTGAAATGTTGGTGAAATGACCCGAGGACCATCTTCAGGCATTGGCAGGATGCTTTCCTCAGGGGCATCCTGAGGGGTCATCCTTCTAGGTGAGGACCCCATCTGGACAGGCTCTGGGGCTGTTTTTGCTTCCAGTTCAAGGTGGTAAGGCCAATCCTGGGAGATGGAAGGTGCTCATTCTCAGAAGACCCCCAGGAGGCACCCTATTCTACATGACCAGTGCCACTCTACAGGACCACCTGCTGATAAATCTTTCCAGCGCCAGCTCCCCATGAAAATGCTTTCCCAGGGCGATAGCAGCATAGCATCCCCTCTTCCCTTCCCAGGCTGGACATGAGGAACAGCCGCATATAGAATAGCTCCATGTCTCTGTGAAATTGTCATCAAAGACACTGCCTGTCAACCTGCTGGATGCCCCCAGTATAAAATCAAATGTAGTTAACTGCCCCAGAAGTTGAGGCCAGGAAGAGTTCCTCCCTCCCCAACCTCAATTGCTTCCTGCTCTTAATCCGAAGAAAACCATGATGTCTCCCTTTTTGCTTCAGTGGCTGGGAAAATTAATGCTACGTAATGTGCTCAATGATAGCAGTTTCTCTTAGCCCACATTTCTGGTATTTTTAATTCCTATTATCACACACGTGCACGCACACACACACACATACACACAACACACACACATGCACACAGTAGTCATAGTTTTTCCTAGTCTCTTTCTGGAAGCAGATGGGGAACACATCTAAAGGGTTGAGTTGATTCATTCAACAGTACTTACCCTGAGGGGTTCCCCAGTGCCAGAGATAGTGGCAAGGACTAAACTGCTTTCAGTCCAGTAATAGATAAAGACAGGAATGCAAGGTCACCCACACCAGGGGCCAAGCATCAGGAGTGACCAACACGACAGATGTGCAGGGGAGGGAGTCACTACTATGGCTGGCAGCCATCAGGTAAGTCTTCATGACGAGGGCAAGATGGGTACATTGTGGGGACTAAGTGCTTGGAAATCTGAGTGCTTTTACACGGCAGGCAGATGTGCCTCTCAGATCCTGGCACTGATATAATTCCTGCATTCCTTCCTTGTTTGGATCAG
Seq C2 exon
AGGCTGGACATTGATGCCACCCAGCTTCAGGGCCTTCTCAACCAGGAGCTTCTAACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000162949-CAPN13:NM_144575:15
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.259 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF138331=EF-hand_8=PU(29.1=80.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
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)