GgaINT0079529 @ galGal4
Intron Retention
Gene
ENSGALG00000020084 | CAPN13
Description
calpain 13 [Source:HGNC Symbol;Acc:HGNC:16663]
Coordinates
chr3:7763327-7764529:+
Coord C1 exon
chr3:7763327-7763501
Coord A exon
chr3:7763502-7764460
Coord C2 exon
chr3:7764461-7764529
Length
959 bp
Sequences
Splice sites
5' ss Seq
TGGGTGAGT
5' ss Score
8.73
3' ss Seq
GTGTTTTCACTCTTTTGCAGATG
3' ss Score
12.42
Exon sequences
Seq C1 exon
GCTGCAGGGCTCCTACCAGAACTTGCACGGGGGCTACATTTCTGATGCTTTAGTAGACTTCACAGGTGGAGTCCAAATGCAGTTCTCACTAAAGGACCCCCCTCCTGATCTGGAGGACGTGCTGAAAGCAGCTAGCAAATCTCGGTGTCTGATGGGATGCAGCACCTCGGGCTGG
Seq A exon
GTGAGTCACAAGGCCAGAAGCACATCTTGGTTTGCTACGTTTGCATCAAGTTTACTCATCCGAGTGAAAAAAAGGACACCCATAATCACTCTGTGCCATGATCACAGCTCGTAGATGCCTGGTGAGATCTTGGCAGCAGAAAGTAAATAAGGTTATGCAATGCGGAATGTAGAGGCTTTCGGGTAGATGTAGATGGTTTGAAGGTGGATATGGAAAACAGTTGTGGGTGGAGGGGAGATGCACAGCCCTCTCTGAGGGGCTTTCTTCCTATTTTGACCTTGATAGAATCAATTACTCAGCTGTCTCTGAGCTGTGTGTGTCTCCTGGCTAATTCCACTGTGACTGAGCGCTATCTTCTTGCAGCAGGGCTGATTTTGGTCTTATAGCTTTGCAATTGATTGTAGCAAAGCCAAAATGCGACTGTCTTCTGTAAAGGGACACTGTTATCATATCATGATTTGCAGGCTACTGATATTAACGCTGGGAAGCTGGAAAAGATCTTGTGATGTATTAAGTACTTTATTAAAAGACCTGACAAAGGCTTATACAGCATGTCAAGGAAAACTGCAAGGCGCGTTCCATTGCTTCTGTATTGCCTGGTTTGTCAGGACAGAAAGTTTGGCTTTTGCAAACAGGTGAAGGACAAACCCCTCAGGTCAGGTGTGTGGGCTGTAGTGAGATGTTGGGGCTCTCATCCTCCCAGCAGCCCAATCCATGTCATGCTGTAGTTGCACCAGCTCTGTACCATTAAAACTTTTCAACTGTGGGAAGACCTGTACTTTCGTTGTATTTACTGAGCTGCTCATAGCTGCAGTCACGCTTCTCTGGAGCTGCTACATCTGAGATACTGCTGAAATTAAAACAGTCCCTCTTCCTCCCATGCCAGTTCTGGGGGGGTCAATGGCCACTCCATTGCAGTATGGCAGAGAGTTATAAGCTGTGTTTTCACTCTTTTGCAG
Seq C2 exon
ATGAGGAACACAGTATTAAGGAATGGGATTGTGCAAGGTCATGCGTACACTGTCACAGGAGCCGTGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000020084:ENSGALT00000014759:6
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(19.7=100)
A:
NA
C2:
PF0064816=Peptidase_C2=FE(7.5=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCAGGGCTCCTACCAGAACTT
R:
CACGGCTCCTGTGACAGTGTA
Band lengths:
238-1197
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]