RnoINT0034885 @ rn6
Intron Retention
Gene
ENSRNOG00000001072 | Cers4
Description
ceramide synthase 4 [Source:RGD Symbol;Acc:1309303]
Coordinates
chr12:4446766-4447219:-
Coord C1 exon
chr12:4447101-4447219
Coord A exon
chr12:4446824-4447100
Coord C2 exon
chr12:4446766-4446823
Length
277 bp
Sequences
Splice sites
5' ss Seq
CAGGTAATT
5' ss Score
8.55
3' ss Seq
AGCTTCCTCCCCTTCTGCAGCTG
3' ss Score
8.61
Exon sequences
Seq C1 exon
ACCCAGATGGTCCTCCTGGCTTCCCAGTGTGGCCTCACGTTGCGGCAGATTCAACGCTGGTTCAGGAGACGTCGGAACCAGGATCGGCCTTGCCTGTCCAAGAAATTCTGTGAAGCCAG
Seq A exon
GTAATTGTGGGGTTCAGGGGGAGGTAAGGTCTGTCTGAATGATGAGGCCCCATTCCTCCTAGCCTGCCTGGATGATGAAACCCTGCTTCTCTTAGCCTGTCTGGGTGAGGGGGCATCCCCCTCTTAGCCTCCTAGGTACTTGAGGTCCTTCCCTTCCCAGATTCCCTGAGATATGAGCCACACCACTTTCAGTGTCCCTGTCAGATGAGGCTCTACCTCTGGGTCCTGGACATTGCTCTTTTGGCAGCTGCCTTACTAGCTTCCTCCCCTTCTGCAG
Seq C2 exon
CTGGAGGTTTGTCTTCTATCTGTGTTCCTTCGTGGGTGGCACCTCTATCCTCTACCAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000001072:ENSRNOT00000001418:5
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=PD(60.4=72.5),PF0379811=TRAM_LAG1_CLN8=PU(2.6=12.5)
A:
NA
C2:
PF0379811=TRAM_LAG1_CLN8=FE(9.8=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:
AGATGGTCCTCCTGGCTTCC
R:
TGGTAGAGGATAGAGGTGCCAC
Band lengths:
172-449
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]