RnoINT0034889 @ rn6
Intron Retention
Gene
ENSRNOG00000001072 | Cers4
Description
ceramide synthase 4 [Source:RGD Symbol;Acc:1309303]
Coordinates
chr12:4444184-4444892:-
Coord C1 exon
chr12:4444764-4444892
Coord A exon
chr12:4444291-4444763
Coord C2 exon
chr12:4444184-4444290
Length
473 bp
Sequences
Splice sites
5' ss Seq
GAGGTGGGT
5' ss Score
7.07
3' ss Seq
TTCTCTGTTTTTCTCCTCAGGGC
3' ss Score
13.03
Exon sequences
Seq C1 exon
GACTTCAAGGAGCAGGTGGCGCACCACTTCGTGACCGTGGGACTGATCGTCTTCTCCTACAGCGTCAACCTCCTCCGCATTGGCTCTGTGGTACTGTTGTTGCATGACTGCTCCGACTACCTGCTGGAG
Seq A exon
GTGGGTTTGTCTCTGCATTTGCCCTGCCAGCCCTGCTGTTTTCTTGGCTGTGGAGAGGAGGCCCTGCCCTGCTCAACTGGGGTATCTGATGAGACCTTGCCCCTCCTAATCCGCTAAGATGATAATGCCTTGCCCACTCAACCTCTTTGGAAGGTGAAAGCTCAACCCTCCCTATATCGTTTCCCTGTGACATACGTCCTATTCCCTCCTGGTCTCTCTGGGATAGGAAGTCCCCATCTCTGTCTGATTCCTTTATATGAGACCCTGCCCCTCCAAGCCTTCCAGGGACTAGAGGTGCCACTCCCCAGTATCCCTAGAGATGAAATATTCTGTCTTATCCTTTTTAGGTAGGTCTGGACACATGGCTTTACCTCCGTTCACTTGACTTCACCCATAGTTTATCGTCTCCCATGTGATCCACCACTTTCCATAGGTTTGTGGTCCTAAGCCTGTTTCTCTGTTTTTCTCCTCAG
Seq C2 exon
GGCTGTAAGATGCTCAACTATGCCCACTTTCAGCGAGGGTGCGATACTCTTTTCATCATCTTCTCCTTAGTCTTCTTCTACACACGCCTCGTATTCTTCCCCACCGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000001072:ENSRNOT00000001418:9
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(21.6=100)
A:
NA
C2:
PF0379811=TRAM_LAG1_CLN8=FE(18.0=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:
GACTTCAAGGAGCAGGTGGC
R:
GGGAAGAATACGAGGCGTGTG
Band lengths:
230-703
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]