RnoINT0034888 @ rn6
Intron Retention
Gene
ENSRNOG00000001072 | Cers4
Description
ceramide synthase 4 [Source:RGD Symbol;Acc:1309303]
Coordinates
chr12:4444764-4445231:-
Coord C1 exon
chr12:4445139-4445231
Coord A exon
chr12:4444893-4445138
Coord C2 exon
chr12:4444764-4444892
Length
246 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGT
5' ss Score
10.47
3' ss Seq
TGACCCACTGTCTTCTGCAGGAC
3' ss Score
10.48
Exon sequences
Seq C1 exon
ACCCTGAATTTGGCCCTGTCCTGGTGGTACCTCCTGGAGCTGGGCTTCTACATTTCACTGCTAATCACTCTGCCCTTTGACATCAAACGCAAG
Seq A exon
GTGAGTTATGAGCCAAGAGTCTAGCTGGAGATGTCGGTTCCGTGAGGGAGGGGGATACTTTCCAATTTCTGGGCAGGGCCCGAAGTGGGAAGAGTTGGCCTCAACATTGTACCCTGAGGTGCCCTTGATTCCTCAGAAAGTATGGGGTCCAGAGGCCCTGTGGATCTTCTGAAAAGGTTTGCTTACAGGCATGTGGCCATCCAGCCACAGAGTCTTGTCCTGGTGGTGACCCACTGTCTTCTGCAG
Seq C2 exon
GACTTCAAGGAGCAGGTGGCGCACCACTTCGTGACCGTGGGACTGATCGTCTTCTCCTACAGCGTCAACCTCCTCCGCATTGGCTCTGTGGTACTGTTGTTGCATGACTGCTCCGACTACCTGCTGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000001072:ENSRNOT00000001418:8
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(15.5=100)
A:
NA
C2:
PF0379811=TRAM_LAG1_CLN8=FE(21.6=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:
CCTGAATTTGGCCCTGTCCTG
R:
CTCCAGCAGGTAGTCGGAGC
Band lengths:
220-466
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]