GgaINT0079526 @ galGal4
Intron Retention
Gene
ENSGALG00000020084 | CAPN13
Description
calpain 13 [Source:HGNC Symbol;Acc:HGNC:16663]
Coordinates
chr3:7758359-7759365:+
Coord C1 exon
chr3:7758359-7758428
Coord A exon
chr3:7758429-7759246
Coord C2 exon
chr3:7759247-7759365
Length
818 bp
Sequences
Splice sites
5' ss Seq
TAGGTAAGG
5' ss Score
9.31
3' ss Seq
GGATCCTTCCCTTCCTCGAGGTG
3' ss Score
3.15
Exon sequences
Seq C1 exon
GAGCTTCTGAGAAACCCCTGCTTGATAATGGATGGAGTTAGCAGATTTGATATTATTCAAGGAGAAATAG
Seq A exon
GTAAGGTTATTCCTGTTTTGGAAGAGATTGGCAGGGAGCAATAACCTGTGCTTGCTTTATGATATTCTGAGTTCTTGGTGGAAAGGCATGAGTCGTGGTAGCCTCAGTAAACAGTGTAGTTCGTTGCAGACTGCTGCAAGTCTACATGCTATTTATTGGAGATATTTAACAGGATTCCCAAACGCTAATCCCTACTTTAGTACACATGGCACCCACCCTCTATACATAAGGACAAGATCTAAATAAGAACAGGTAGAAACTTTGAATACAAGGGTCAAATACAGTTATTGGGTAAGCAGGTACAGCTCCGATATGTACTTCATCCTAACATCTCCACCTGGTCACTCTTGCTGTTTTGTGTTGTTCTTCTTTTCCTATGGCACTTCTGTCCAACTTCTACAGTACTCAGACAGACATGTGTCTGCATCTCATATCAGTTCCATCTTTCTCTCCCATCATCTTTGTCTTTGAGAGCAGCTCCCATACTATAAGCGTTGTCTTCTTGTTTCTCACCTCACTGGGAGGTTTGAAAGTTTTCCATACCACTTTCTAGACTGCAGATCTCAACATGACCACGAAAAGAGAAGTATGAAAGCAGCCAAGGATGGCTAAGTGGCATCAGGGCTTCCGTGGGGCATTGCTTGTGAATGCCAGGTTTGCATTTCAATGTTTTTGAAGGACAGAAGGAAGGCAGAAGAAAGCTGGCTTCTTTTAATAAGTTGCTTCTTAGATGTCTGAGTCTGTAATTCTAAGGAGTTAATTACAGTCCACAACAGTGAACAACTTACTGAATGTACTGGATCCTTCCCTTCCTCGAG
Seq C2 exon
GTGACTGCTGGATGCTGGCTGCCCTGGGCTCCCTGACAATGCAGAAGCAATTTTTGGAAAAGGTTTTACCAAAGGACCAAGGATTCCAGAGTGATTATGCTGGGATTTTCCATTTTCGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000020084:ENSGALT00000014759:3
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=FE(7.8=100)
A:
NA
C2:
PF0064816=Peptidase_C2=FE(13.2=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping 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:
GAGCTTCTGAGAAACCCCTGC
R:
CCGAAAATGGAAAATCCCAGCA
Band lengths:
189-1007
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]