RnoINT0034862 @ rn6
Intron Retention
Gene
ENSRNOG00000021138 | Cers2
Description
ceramide synthase 2 [Source:RGD Symbol;Acc:1310059]
Coordinates
chr2:196492969-196493387:+
Coord C1 exon
chr2:196492969-196493086
Coord A exon
chr2:196493087-196493268
Coord C2 exon
chr2:196493269-196493387
Length
182 bp
Sequences
Splice sites
5' ss Seq
CAGGTATGA
5' ss Score
9.46
3' ss Seq
ATAATGGTCTCTATGCCTAGGTG
3' ss Score
7.1
Exon sequences
Seq C1 exon
TTATGTGGCTACACCCCTGGCTGCCCTCCTGAATGTTAAGGAGAAAACCCGACTGCGGGCACCTCCCAATGCCACCTTAGAGCATTTCTACCTGACCGTCGGCAAGCAGCCCAAGCAG
Seq A exon
GTATGAGCTGTAGATGACTCTGGGAGTTGCTGAGCTTGGGTGGGTCAGAGTTTGAATGCTTGCTTGCTTTGGAAGGTGGGAACTTGGTAGGGGATGGGCCTGACTCAGGTTATTATGGGGAACGGTTAAGTAGAATGAGGGCACTGCTGATGAGGGCTGAATATAATGGTCTCTATGCCTAG
Seq C2 exon
GTGGAGGTAGACCTTTTGTCTCGGCAGAGTGGGCTCTCTGGACGCCAGGTAGAACGTTGGTTCCGCCGCCGCCGCAACCAGGACAGGCCCAGTCTTCTCAAGAAGTTCCGAGAAGCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000021138:ENSRNOT00000028699:3
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=0.000
Domain overlap (PFAM):
C1:
PF0004624=Homeobox=PU(45.6=65.0)
A:
NA
C2:
PF0004624=Homeobox=PD(50.9=72.5),PF0379811=TRAM_LAG1_CLN8=PU(2.6=12.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGGCTACACCCCTGGCTG
R:
TGGCTTCTCGGAACTTCTTGA
Band lengths:
231-413
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]