RnoINT0034895 @ rn6
Intron Retention
Gene
ENSRNOG00000052990 | Cers5
Description
ceramide synthase 5 [Source:RGD Symbol;Acc:1311597]
Coordinates
chr7:141390424-141392291:-
Coord C1 exon
chr7:141392199-141392291
Coord A exon
chr7:141390553-141392198
Coord C2 exon
chr7:141390424-141390552
Length
1646 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGG
5' ss Score
10.51
3' ss Seq
TGCCCTCCCTCCCTCCCCAGGAC
3' ss Score
13.97
Exon sequences
Seq C1 exon
CCACTCTCAAGAGAGCTCTATTACTACTATCTCACACAGCTGGCCTTCTACTGGTCCCTCGTGTTCTCTCAGTTTATAGATGTTAAAAGAAAG
Seq A exon
GTAAGGACATCAACCCCTCAGCTGCTTTCTAACAGTTCTGCCACTACCGTCATGACACTCTCTCCCTCATTGACAGAAAGTGGGTGTGACATCACTGTCATTAGCTTGACGTGGCTAATGGTGGAGCATGTATGAGGTGGTCAGGGCAGCGGCGGAGCAGCCAGGCGGCCAATATGCATGCTCCGTCCTTCTTCGCTCTAGTGGTCCTTTACACCAAAGCTCAGGGAGTCAGTCAGAACTTGGGGCACCAAGGCCTGGTTCGGGGAAAACCTAATTTTAGAAAATTAAGATTCAGGCTGGAGGGGTTGGGGATTTAGTTCAGTGGTAGAGCGCTTGCCTAGCAAGCCCAAGGCCCTGGGTTCAGTCCCCAGCTCTGAAAAAAAGAAAAGAAAAGAAAAAAAAAAAATTCACAGGGGCTGGGGATTTAGCTCAGTGGTAGAGCGCTTACCTAGGAAGCGCAAGGCCCTGGGTTCGGTCCCCAGCTCCGAAAAAAAAAAAAAAAAAAAATCAGGCTGGAGAGATGGCTCAGAGGTTAAGAGCACCGACTGCTCTTCTAGAGATCCTGAGTTCAATTCCCTGCAACCACATGGTGGCTCACAACCATCTGTAATGGGATCCGATACCCTCTTCTGGTGTGTCTGTAGACAGCCACAGTATACTCACATCTGAATCTTTAAGATTCAGAAAAGTGAGTTGACTGTCCACAATGATAGTTCCATATGACTTATATTTTATAAAACTATATTTGACAGAAACAATTTAAAGATGAAAAGTTCATTTTGGCTCACAGCTTCGAGTTTCCTTCCGTCATGCAGGGAAGGTGCAGGGGTAGCTGAGTTCATGGTAATAGGTGTAGTGGAAGCCAAGTACATCACTGAAACAGGGGGCAGAGAAAGTGCCCTAGGAGCCCTCAGCCAGCCAGTGTAGCCTTCAGATGACGGCCCCCTCTCACCTACCTCCAGCTGGGCCCTGCCATCCCTAAAGTTCCACAGCCTCCCAAGATAGTGCCACCAGTGGGCAAAGAGCCTGTGGACACTTCACTTCTACACCGAATCGTGTAACAACTGTTGCAGAGTGCCTCAGGGTCAGTTTGGCCTATGAACTCAAGAAAGACAGACTTAAACCTCAAAGCCTTAACTATTTGCAGTAAGATGAATTCTTGGTGGGTAGAGGCACAGCACCTTAATCTCCAGACAGGCGAATCTCTGAGCTCGAGGCCACCTGCAGAGTGGATTCCAGGACAGCCAGAGCCATACAGAGAACCCTGTCTCGAAAAACAAGACTGGGGTTGGGGATTTAGCTCAGTGGTAGAGCGCTTGCCTAGGAAGCGCAAGGCCCTGGGTTCGGTCCCCAGCTCCGGAAAAAAAGAACCAAAAAAAAAAAGAAAAAGAAAAAGAAAAACAAGACAGCAACCAAGCTGATGAATTGCAGCTAATCAGCCGTTCTCTGGAGTTAACTCCAGTTGTGTGTGTCCTGTGTTGAGTTCAGGGCCCGCAGCGGCCAGAAGAGGGTGCTGTGGAGCTAGAGCTGACAAACAGTTGAGGTGCTTGCTCTTAGGCACTGAGGGGTGCACAGGTTAAGACTCTGGGGACAGCAGCTGGTTGGTTTGCACAGCCTGTCCTTTGCTGCCCTCCCTCCCTCCCCAG
Seq C2 exon
GACTTCCTGATGATGTTTATGCATCATTTGATCGCCGTCACGCTCATCAGTTTCTCCTACATCAACAACATGGTGCGAGTGGGAGCCATCATCTTGTGTCTGCATGACTCCGCCGACTCCTTGCTAGAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000052990:ENSRNOT00000080109:6
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
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCTCTATTACTACTATCTCACACAGC
R:
TTCTAGCAAGGAGTCGGCGG
Band lengths:
208-1854
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]