GgaINT0079550 @ galGal4
Intron Retention
Gene
ENSGALG00000020084 | CAPN13
Description
calpain 13 [Source:HGNC Symbol;Acc:HGNC:16663]
Coordinates
chr3:7782906-7783920:+
Coord C1 exon
chr3:7782906-7782961
Coord A exon
chr3:7782962-7783868
Coord C2 exon
chr3:7783869-7783920
Length
907 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAGG
5' ss Score
10.28
3' ss Seq
ATGCCTTTTCCTTTTTCCAGTGG
3' ss Score
9.42
Exon sequences
Seq C1 exon
ATGCATTTCAGAACTTAGCCAAAGGTGGACCGCAAGTTTTGATGACGGTGACGGAG
Seq A exon
GTAAGGATGCTCCTTCCTTCTCTCCAGCTCCACAGCAGGACCATAGCGTTAAGTTAGCAGGAGGATGACGCTAAGGGTGCTGTGTCAGTGCTGTGGGTGTTGCCAGGAGCTTTGCTGTGGTGTGGGTTTTACCTGGCTGGGTGTGCAATGGACCACAAGAGGTACTACCTGAGGCTCTCTACTCACACAGCCTTACCAGTATGAGGACAGCTCAGTGGTGGCCAACCACATCCAAAGCACTGTGCCTTCCCATGCGTTCCCAGTTCTGTCATTGGTGGAAACAATACTTAGAGTGGCTTTGAGGAAGTGACAAAAACAAACAAACAAAAAAATCCATGCCCTCATTTCATACTGCCCCATCTGTTCATTCTGGACTGCAAAACATCTTGCTTTTATGGAAGAAAGATCAGACAAGTGCTTGCTGCTGCTGTTTGTCTTACAAAGCACAGCCTGGGTAGCTACTGAATGGCGATATATTGAGCTTTTCATCAGCCAATCTGAAGCAAAAATCCTGCTGTGCTCTATAGTGATGTGCCTGAGTGCTGCATTTTGTCAGTCTGGAAGCTATTTTTTTTCTGACAAAACAGTGTTTAAAAGGTTTTATTAAAAGGATAACCACATTCCTGGAGCCTGCTACCTCTTATGCTCGCAGCCATGCAGGTGCCATCCTTTCCCAGCAATTGCTCCCACTGCAGCTGCTGCAGTAATTTATCATGGAAAGTAACATATGGAAGGTGTTTCTGGGTCTGAATTGGAGTAAAGGAAAAAGACAGCTTCAAAACCCCTTAACTGTACTGTGCAGGACAAAAGGATCACAGTGACTGGATCCCAGCCTGCAGGTACTGAGACACAAGGCTGAAGACTTAGTGCAACATCATCATCTAAATATGCCTTTTCCTTTTTCCAG
Seq C2 exon
TGGCTGACTCTTGTCATGTACATCTGAAGAGTTGTCAGAGCTCAATGTGATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000020084:ENSGALT00000014759:20
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:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Human
(hg38)
No conservation detected
Human
(hg19)
No conservation detected
Mouse
(mm10)
No conservation detected
Mouse
(mm9)
No conservation detected
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
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]