DreINT0045451 @ danRer10
Intron Retention
Gene
ENSDARG00000013704 | cers2a
Description
ceramide synthase 2a [Source:ZFIN;Acc:ZDB-GENE-020808-2]
Coordinates
chr19:8858407-8858909:-
Coord C1 exon
chr19:8858803-8858909
Coord A exon
chr19:8858561-8858802
Coord C2 exon
chr19:8858407-8858560
Length
242 bp
Sequences
Splice sites
5' ss Seq
TTGGTGCGT
5' ss Score
6.18
3' ss Seq
ATTTTGTGCGTGTCTTTCAGGAT
3' ss Score
11.38
Exon sequences
Seq C1 exon
TCTGCCAAGATGTTCAACTACGCCGGCTGGAGGAAAACCTGCAACTACATATTCATCATCTTCGCTGCCATCTTCATCATCACCAGACTCGTCATCTTCCCTTTTTG
Seq A exon
GTGCGTGTATTATTAAACCTATAAAACATTAATCGCCCCACTTTTCAGTGTTTGTCAAGAGAGCTCAAATGATTTGCTGCCGTAATATCAAATGAAAGATCTATAAATAGGAATTCGGCTCAAACTTCGGGTTAAATGCCACTCTTTAATTATGCAGGAAACCTTTGTGGTAATGAACTCCATCTGCTGTTGGGTAAATGTCAGATGGGAAACTCTATTTTTATTTTGTGCGTGTCTTTCAG
Seq C2 exon
GATCCTGCATTGCACCTGGGTGTATCCGGTGACTGTTTATCCTCCGTTTTTTGGGTATTACTTCTTCAACGGGCTGCTGTTTGTGCTGCAGTGTCTGCACATCTTCTGGGCCGTACTCATCCTGCGTATGGCTATCAAATTTTTGCCAGGCAAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000013704:ENSDART00000025385:9
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(18.0=100)
A:
NA
C2:
PF0379811=TRAM_LAG1_CLN8=PD(21.6=80.8)
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:
TCTGCCAAGATGTTCAACTACGC
R:
TTGCCTGGCAAAAATTTGATAGCC
Band lengths:
260-502
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]