GgaINT1009235 @ galGal4
Intron Retention
Gene
ENSGALG00000006184 | CERS5
Description
ceramide synthase 5 [Source:HGNC Symbol;Acc:HGNC:23749]
Coordinates
chrLGE22C19W28_E50C23:280094-280613:+
Coord C1 exon
chrLGE22C19W28_E50C23:280094-280222
Coord A exon
chrLGE22C19W28_E50C23:280223-280506
Coord C2 exon
chrLGE22C19W28_E50C23:280507-280613
Length
284 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGT
5' ss Score
10.03
3' ss Seq
ATGTTTCTCATCTCTTATAGGCT
3' ss Score
10.25
Exon sequences
Seq C1 exon
GACTTCCTGATCATGTTCGTTCATCATTTGGCTACAATTGGGCTCATTACGTTCTCTTATATGAACAATATGGTGCGTGTTGGAACGCTGGTGCTGTGTCTCCATGATGCATCTGATTTCCTCTTAGAG
Seq A exon
GTGAGTTTCCTTTTCAGTCTTTCTGTACCTAATGCTGGGGTGCTCTCAGGGAAGCGAGCAGACTTCCCTATTTTTGCTGAGCAGCATTAAACATGCTGTAGTATCTGCATTGCTGATCCTGCTTTGTCAGCTTTTCCTCATAACTGCTGTAGTGCTGAGAATAATCCCTAAGTATTCCTAACTCCTTATAAGTATGATGTCTTGAGGATTTTGGAGCTCTACAGCCTGGTAATTATGTGAGTGCACAAAGGGAATAATATTCTCATGTTTCTCATCTCTTATAG
Seq C2 exon
GCTGCAAAGCTAGCCAATTATGCCAAGTACCAGCGTCTCTGTGATGCCTTCTTCATGCTCTTTGGTGTTGTGTTCATTGTCACACGCTTGGGCATTTATCCTTTCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000006184:ENSGALT00000009980:7
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:
PF0379811=TRAM_LAG1_CLN8=FE(21.6=100)
A:
NA
C2:
PF0379811=TRAM_LAG1_CLN8=FE(18.0=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GACTTCCTGATCATGTTCGTTCA
R:
CAGAAAGGATAAATGCCCAAGCG
Band lengths:
236-520
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]