RnoINT0034861 @ rn6
Intron Retention
Gene
ENSRNOG00000021138 | Cers2
Description
ceramide synthase 2 [Source:RGD Symbol;Acc:1310059]
Coordinates
chr2:196492393-196493086:+
Coord C1 exon
chr2:196492393-196492566
Coord A exon
chr2:196492567-196492968
Coord C2 exon
chr2:196492969-196493086
Length
402 bp
Sequences
Splice sites
5' ss Seq
GCTGTGAGC
5' ss Score
3.2
3' ss Seq
TCTCTCTGTCCCTTACCCAGTTA
3' ss Score
7.49
Exon sequences
Seq C1 exon
GATGCTCCAGACCTTGTATGACTACTTCTGGTGGGAACGACTATGGCTGCCTGTGAACTTAACCTGGGCTGATCTAGAAGACAAAGATGGACGTGTCTATGCCAAAGCCTCAGACCTCTACATCACACTACCCCTGGCCCTGCTCTTTCTCATCATTCGATACTTCTTTGAGCT
Seq A exon
GTGAGCATGCCTTCAAACCTTCCCTGATTGCCAGCTAACCTATCAGGCTTCATGTTGATCTCTTGGTACTTAGTTCTAAACATTGGTGTTCTGGTCACCCAGGTCCCTACCCATGCTCCCCCTCCCCCAGGGCACCATTGTCTTGCTGAGGGCTCAGCACCCCCAGGCTTTTCCTTCAATGGTTATTTGTTCTCATTCTGCACCCGCCTCCTCGACCGGTCAGTAGTGAACATAGGCAGCTTTGTCAGCTGTGGGCAGCCCAGGAGGCTAGAGAAAAGGTGCTTGCCAGGGAACTTGGGAAACTGAGGCCCAGACTTAAATCTTGCAGTACCTTCTCCATCCCATCTAGGGTTAGGAGGGCCCCAAGGGAGCCAGACACCTCTCTCTCTGTCCCTTACCCAG
Seq C2 exon
TTATGTGGCTACACCCCTGGCTGCCCTCCTGAATGTTAAGGAGAAAACCCGACTGCGGGCACCTCCCAATGCCACCTTAGAGCATTTCTACCTGACCGTCGGCAAGCAGCCCAAGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000021138:ENSRNOT00000028699:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0004624=Homeobox=PU(45.6=65.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGCTCCAGACCTTGTATGACT
R:
CTTGCCGACGGTCAGGTAGAA
Band lengths:
278-680
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]