GgaINT0054913 @ galGal3
Intron Retention
Gene
ENSGALG00000009050 | CAPN3
Description
NA
Coordinates
chr5:27824661-27825587:+
Coord C1 exon
chr5:27824661-27824730
Coord A exon
chr5:27824731-27825468
Coord C2 exon
chr5:27825469-27825587
Length
738 bp
Sequences
Splice sites
5' ss Seq
TAGGTATGA
5' ss Score
6.99
3' ss Seq
CTGCTTCTGCTTGCTTACAGGCG
3' ss Score
9.54
Exon sequences
Seq C1 exon
GAAATCTGTGAGAATCCACGATTTATTATCGGCGGAGCCAACAGAACAGATATCTGCCAAGGAGAATTAG
Seq A exon
GTATGAAATTGTCACATCCACCCCACACATTTTAAACTTGCATCATAGTTCAGCTCTCAGTTTTCATTTGCTTCCAAGGAGGCATTTTAACTCTCTCAGTATGCCACTACACATCTACTGATTCCTTGCCTATAGCAAATGGATGACATCTGCCCTCTACCAATCTAGGGAGGAGCTTTGAGCAAACAACACTTTGCTTTCCATGAACTAATATCATGAGTGCTGCAAAGCACCATTTGGCAGGACCTGGCCCTCCTCCAAATTGTTGTATTTAGTCTTGTTATTTCCAAACTTCTGGAGGCCTTCAGCCAAGTGTGCCTTGTACAGAAGGATAACCTCTGTATTGAAGAACTGAAGCTCAGATGCTCAAAGCTGCCTTGATATATTAAGCTGCTACTGAGGTGTAAGTGACATCTCTGCAGCTGTCAGCCACATGGCACTCACCTGCACTGCTTTGTAAAGACATTTCCCACTTAGCTTTTCCATGCCTTCCATGGTTTTATTGCTTCTCCTGTGACAGATGTGTGCCTAAACAGTGCTGCCAATGAGTGTTTCCACAGCATCAATAACTAAGAAGTGCTGAAGTACCACAGAACACAATGAGAAGAGCCCTTTGCTGAAAGGCTGTGGCACGCTCTATTGAAAAATCAGTGTTTCACCTGGCAGTACCTTAGCTTTCCACTTTAATTCTAGCTGCTCTCTCCCCTCATTTTGCCTGCTGCTTCTGCTTGCTTACAG
Seq C2 exon
GCGATTGCTGGTTCCTGGCTGCCATTGCTTGCCTGACACTGAATAAAAAACTGCTCTGCAGAGTCATACCTCATGACCAGTCCTTCATACAGAACTATGCTGGCATCTTTCACTTCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000009050:ENSGALT00000032636:2
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(6.7=100)
A:
NA
C2:
PF0064816=Peptidase_C2=FE(11.4=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAAATCTGTGAGAATCCACGATTT
R:
TGGAAGTGAAAGATGCCAGCA
Band lengths:
188-926
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]