DreINT0045455 @ danRer10
Intron Retention
Gene
ENSDARG00000058992 | cers2b
Description
ceramide synthase 2b [Source:ZFIN;Acc:ZDB-GENE-110408-40]
Coordinates
chr16:1362205-1362519:+
Coord C1 exon
chr16:1362205-1362322
Coord A exon
chr16:1362323-1362400
Coord C2 exon
chr16:1362401-1362519
Length
78 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGA
5' ss Score
9.22
3' ss Seq
GCTGTTATTTACTCTTTCAGAGT
3' ss Score
8.93
Exon sequences
Seq C1 exon
ATATGTTGCTACACCGCTGGCCTCTCTGCTGGGCCTGAAGGAAACGGTGAGACGGAGAGTTGCACACAATCCAGCACTGGAGTCCTACTATTGCAACACAAGCAAAAACCCCACACAG
Seq A exon
GTGAGAACGAGCGCTGCTGATGCCCATTAGTACTGGAGAAGCCCACGCTTACTGTTGTGCTGTTATTTACTCTTTCAG
Seq C2 exon
AGTTCAGTGGAGAAGCTGAGCAAGCAGACGGGATGGACAGAGCGGCAGGTCCAGCGCTGGTTCAGACGCCGCAGAAATCAAGACAGACCAAACCTGCTGAAGAAGTTCTGCGAGGCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000058992:ENSDART00000149299:3
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=0.075
Domain overlap (PFAM):
C1:
PF0004624=Homeobox=PU(38.0=47.5)
A:
NA
C2:
PF0004624=Homeobox=PD(58.0=72.5),PF0379811=TRAM_LAG1_CLN8=PU(2.6=12.5)
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:
ACGGAGAGTTGCACACAATCC
R:
CGCAGAACTTCTTCAGCAGGT
Band lengths:
179-257
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]