GgaINT0087018 @ galGal4
Intron Retention
Gene
ENSGALG00000011136 | CAPN9
Description
calpain 9 [Source:HGNC Symbol;Acc:HGNC:1486]
Coordinates
chr3:39839735-39840731:+
Coord C1 exon
chr3:39839735-39839813
Coord A exon
chr3:39839814-39840614
Coord C2 exon
chr3:39840615-39840731
Length
801 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGA
5' ss Score
10.77
3' ss Seq
TTGTGTATGTGTTTGGGAAGGAT
3' ss Score
3.09
Exon sequences
Seq C1 exon
AATATCTTTCTTCGATTTGACTTTGACAAATCTGGCTCCATGTCCTCCTATGAGCTTCGCAGTGCTCTCAAAGCTGCAG
Seq A exon
GTAAGACAAACACTACTACAGCTAAGACAAGTCAGGCAAATTTCCTGTAGGCAAAGACTGTTGCAACCAGTGATGCCAGCTGGGCACCCCCTAACTGCAAGAAGCACTAAGTCCCAGAGAAGACTTAGGTATGTAGAAGGGAAATTGAATGGATTTTTAGCATCTAAGTGAAAACTTGCATGCTCCTTTGTGACGACCCTGCAGCCTCTTCCCAAATGTGTACAGATATGTAGGTAAGATCAGACTTCCCTTTAGTTAAAGCACTTGCTCTGCCAACCTTAGCTTTCCTTGTGCCCACAAGGGTTTGAAGCAGCATGTCCAAGCTGGGGCTGGAAGCAGCCACTGATGGGCCAGTAGCATGCCCCATCCCCCTGCTTGCCAGATAAATATTTCCATTTTTGTTGAACCCTGTGAAACTCAACACTGCAGGGTTAGACCCTAAAAGGAAACACTTCAGAGCCCATCTCCACCTCAGGTGTGTAGGAGCAGTGAGTAAGCTGTTTGTTATGAAGAGAAATCAGTGGGTTTGCATAACATCACGGAGTATTTTTATTATTAAAGCACCTAGCTTTGCAGAAATCTCTTCAATTTTCAGCGAGACAGAGTGGTCTGTCATGTCCAGTGACTGCAAAATTTGTTGTTCAGAGTTAGTTATTCATTTCATAATCAGATCACCTTCTGGGTGGATGTGTGCCATTGTACATCCTCCCATTAACTGGTTTTCAACATTAGTACAGATTTGCAGATTCCTACCTGTTCTATGAGGCTGCTTATTTTTCCTTTGTGTATGTGTTTGGGAAG
Seq C2 exon
GATACCAACTCAACAACTACCTGCTGCAGCTGATCGTCCTCCGATACTCTGATGAGCAGTTCCAAATTGATTTTGATGATTTTCTAAACTGCCTAATTCGCTTGGAGAATGCAAGTC
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000011136:ENSGALT00000018152:17
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:
PF134051=EF-hand_6=FE(78.8=100)
A:
NA
C2:
PF134051=EF-hand_6=PD(9.1=7.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCTTTCTTCGATTTGACTTTGACA
R:
GACTTGCATTCTCCAAGCGAA
Band lengths:
192-993
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]