GgaINT0087013 @ galGal3
Intron Retention
Gene
ENSGALG00000011136 | CAPN9
Description
NA
Coordinates
chr3:42380589-42382207:+
Coord C1 exon
chr3:42380589-42380625
Coord A exon
chr3:42380626-42382126
Coord C2 exon
chr3:42382127-42382207
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
Cow
(bosTau6)
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]