GgaINT0087003 @ galGal3
Intron Retention
Gene
ENSGALG00000011136 | CAPN9
Description
NA
Coordinates
chr3:42368358-42368968:+
Coord C1 exon
chr3:42368358-42368427
Coord A exon
chr3:42368428-42368849
Coord C2 exon
chr3:42368850-42368968
Length
422 bp
Sequences
Splice sites
5' ss Seq
TTGGTGAGT
5' ss Score
9.27
3' ss Seq
TCCCCCTTCTCAATTCACAGGTG
3' ss Score
11.4
Exon sequences
Seq C1 exon
GACATTGTCAAAGATCCCAAGTTTATCCTCGAAGGAGCCACAAGAACTGACATTTGCCAAGGGGATCTTG
Seq A exon
GTGAGTGATTCCTCTGCAGCCTGTGTAGAGCAGTAGGCATATCTTCACAAGTGAGGGGATGTTGTCCCTCCTGAACTGATAGGAGCAGTCAGGCCGGAGTCACTTCCCATGCTGACGTTGCCCATAACCATCTCTTTGGTGGCATGCATTCATCTTTGCCTGGGATCATTCTGGTGCAGTGGGATTCAAGGCCAGGGAAGGATCACCATGCAAGTGTACTGGGAGCCCAAAGGAGCTTTTCATCCCCTAGCACTTCCCAACTGCACTCGCTGGTCACAGACACTTCCTGGGGACACACAGGATCACTTTTCAATGGGGATGGCAGCTGTCTGTGACAACATCTCCCCTCATCCCCACCACATCTTCTTTTCCTCTCAAATGGAAGAAAATGAAGCTTTTCCTTCCCCCTTCTCAATTCACAG
Seq C2 exon
GTGACTGCTGGCTATTAGCCGCCATAGCTTCTCTCACACTGAATGAGAAAACACTAGCAAGAGTAGTACCGCTGGATCAAAATTTTGGGCCAGGTTATGCTGGGATATTTCACTTCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000011136:ENSGALT00000018152:2
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
Cow
(bosTau6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGTCAAAGATCCCAAGTTTATCCTCG
R:
CTGGAAGTGAAATATCCCAGCA
Band lengths:
184-606
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]