GgaINT0087013 @ galGal4
Intron Retention
Gene
ENSGALG00000011136 | CAPN9
Description
calpain 9 [Source:HGNC Symbol;Acc:HGNC:1486]
Coordinates
chr3:39833175-39834793:+
Coord C1 exon
chr3:39833175-39833211
Coord A exon
chr3:39833212-39834712
Coord C2 exon
chr3:39834713-39834793
Length
1501 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAGT
5' ss Score
11.08
3' ss Seq
TACTGTGGTTGACATTGCAGCCT
3' ss Score
3.55
Exon sequences
Seq C1 exon
GGATCTGGATGAAAATGTTGCCATTGATCTCCCCGAG
Seq A exon
GTAAGTCTACAGAGTTAGAATAGCAAGAGGATAGCTCAGTGTAAGCCAGCTCACACTGCTTTTACTGTCTTTGGCTAAAACACATTCATTTCCCAGGAATGTTCCACAATTGCCAGCTTTGTATGAGTGACTGAGGCATTCAGTTCTGCTGAATATGGTAAAAGAGCTATAACAATCAAAATCACGGTCGTTATACTTCTGCAGCTGCTTCAAGGCAGAGTCAGATAGACCAGAGGCTGCTATCAGCCACCACAGGTGCATTGAAAGTGCAATCCCAGTTAGAATGGAGTTGCACGTGGCCTTTCGTATCTGTTCAAATTCTGTTTATTGTTGGAAAAAATAAAAGGCAATGGAATTCCCACAGACCTATGTCTGTTTTGAATACAAACCTACCAGTATCCACAGGGCTTGGGAGGAAGGGCTTGGTACTCGCATGTGCCCAGTGAGGTGATTAAATACTTTTTGTTCTTGAATGGCCTGACCTGTCTGCCAAGCACCAATTGCAGCTGAATCCAAGTCAGCTCCTGTTTTAGTGTTTCCCTGCAACTAATCTGCTGATTGTGGTGTGAATTCCTATGCAAACAAGCTAAGCCATGATTCCATGCGAATCTCTTTATTAGAAACCTTCTCCAGAAACCAGCTAGCAAGTGTAGCCCTTCATTTCTAGGATCTCAGGGCCACGTTCAGGGTCAAAGTAAATTTGTTCAGTATCATTAAAGGAATGCACCCAAACCTGAGTGATACAAAGTGAGAAAGAGGCATATGGTAAAAAAAATAATAATAAATGTAAGGGACCAAGCAGTGCTGAGAGGGTGACAGTATGCTAAATATCACCCATATTGTATCTTCTTTGGGTAGAGAAAGCAAAGCTCAATTATTTCCGCTGTGTGCTGTGCTGTTGGTTGCCTTCCTTTTCCCCAGTTTTTGGCATGAGAACTGTTCTCTGCATAGTCACCATAGCTATAGCAATGGCCCTACGCTGTTGCATGTCTCATCAGCAGACTGAATCATGGGCTCTACACTCCTGCAGTGACACTGAGGCTCTCAGTTGGTTGAAAATGCTTCTGGGCATGCAGTGGCCCTGGGTAAAGTGCTGAGATGCAGTCACCTCTAGCTGCCACCATTGAGAGGGGCCAGGAGTCCCGGGATGATGCCTCTGGAAAGAGCTTCCTTGAATGAGGAAGTTCAAGGACTGTGGAAGCAGAGTGGTGCAGGGGTGGGATGAGACAAGAGGCATTTTCCAGTACAGATGGTTGTGGTTTTGAAGTAGCCAAAGCAATAGCACACTACGTAATCATCCAGGAAAAGGAAATGAGGGATGAGACTCCCCTCAGAAAGCTATATGCTAGGAAGGCCTGAGGTCTGCCATCAAAGCAAGCAATGTTTAGGAGCATGTACCCTTATGGTAAGATATACTATGGTCCCCAGATGCAAAGAGGGACTGCGTGCAGGAGAAACACCATGTTTTACATACAGTTTCTTACTGTGGTTGACATTGCAG
Seq C2 exon
CCTCCAAACCCAACCCCAAGTCCACAAGAATCTGAGGAAGAAAAGCAGTTCCGGGCACTGTTTGAGCAGATCTCAGGAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000011136:ENSGALT00000018152:12
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.538 A=NA C2=0.519
Domain overlap (PFAM):
C1:
PF0106717=Calpain_III=PD(0.1=0.0)
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
Mouse
(mm10)
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]