RnoINT0034881 @ rn6
Intron Retention
Gene
ENSRNOG00000001072 | Cers4
Description
ceramide synthase 4 [Source:RGD Symbol;Acc:1309303]
Coordinates
chr12:4439750-4442159:-
Coord C1 exon
chr12:4442003-4442159
Coord A exon
chr12:4441910-4442002
Coord C2 exon
chr12:4439750-4441909
Length
93 bp
Sequences
Splice sites
5' ss Seq
CAGGTATGG
5' ss Score
9.99
3' ss Seq
GGTCCCATCTGTTTTCACAGATG
3' ss Score
8.13
Exon sequences
Seq C1 exon
GGTCATCTACACTGCTGTGTTTGACTCAATCAAGAACTCAGGCCCCTTCTTTGGCTACTACTTCTTTATTGTGCTCCTGGGGATGCTACAGATTCTTCATGTGTACTGGTTCTGCCTCATCCTGCGCATGATCTGCAGTTTCCTGAGGAAGGGTCAG
Seq A exon
GTATGGAAGCCTGACAGGGTCAGCTCCCAGGACCCTGCCCTGGCTCATAGTTCCTCGCCCTGTTCTGAGCTCTGGTCCCATCTGTTTTCACAG
Seq C2 exon
ATGAGAGAGGACATTCGTAGTGATGTGGAAGAATCAGACTCCAGTGATGACGAGGCAGTTTCTGAAGGTCCCCAGCTGAAGAATGGGATGGCTCGAGGGTCTAGAGCAGCCATTACCAATGGCCCGCGGAGCCGGGCAGCAGCTTGCCTGACCAATGGGCACACCCGGGCCACATAGACAACCGCAGATTGACGTTGAGGGGTTGCCTCCAGCATTGTGGATATTTAGATGCTGGACTGGTAACTCTGGGAGACAGGGAGGCCCTACCTTAAAGTAGGAAGAAGACTGGTGATCTGTTTCCCTTCTGTTCTTCTCACTTTATCCCTTTGAACAACTTGACAGAACCTGGGGGAGCAGTGGACTCTGCATCTGGCCAGAGCCACCCCCAGGCTATAGCTTGGGGGCTCTGGGGAGCCTTGGCTCCAAGGACCAATAAAACTTCAACAGTGACGAATTCTCTGCCGCAAAGCTTGAGTTCCCTTCACAGCTCTTCCTCTCCATTACTTACAGTGTTGACAAGATTCCTCACTGCCACATCAGGATTTATGTCCACTCTTGCCGGTATAGCACCACAGCATGAAGATACTCCCTGCTCCTCAGTCAGTGCCTTCAATTTGTTCTCCTTTAGAGTATCCCTCCAGGACATTAGCATTAGCCGATACAGGCTGACTTTTAGGAAAGAGATTATTAAGCTTAGATGCAACCTCTCTCTCTGTCTGCAGTCCAAGCCAGAGGGTAGAGCTGAAACCTGTGGATATCCTTGTAGTCCTTCGCTTAAAGCAACCTGCAGCCCACCCTGGGGTCTTTATACTCCCTTGGGATGGCGGAGAGCTAAGATTTGGTATGAGGTTACTGTCTTCAGGAGTGCTATAGGAAAAGATCCTCCTCCAAGATTGGAGGGTGGGTGACCAGTGTTACTTAACTCAGAAATCAAAGCTAGAGGATCCATGTATGGTTAGACTGTGCCATCTTTGGGAGCAAGAGGAACCTTGTGTCGTGGGAGAAAGAGAAGAGAGTGGGGAGAAGAGGTCGTCTCAGGGGACTTCCAAAAATAAAGGCTCTTGGTACAAAGAGCAGAGCCTGGCATGGTGACCCATGGCTATCTTTAACATCAGAGAGGAAGAATAGACTGGAAGAACATATGAACCTGGGATACAAAGCAGGGCCTGGTCTCAAAACAAACAACAGGTGGGCGTGTCAAGGAACAGGTACTCCAGAAGAGAAAACAATCGGAATCCGAGATAGAAACAGCTAAGAAAAGGATGGGAAAAGAATGAGGGGTGACTCTGGGTGCAGAGCAGGTTGGTGAGGTGAGATACGGAGTTTTGTCTTTTGGAGAAATATGGGGAAAAGGAAGAGAAATGTGGCTTCTGTTGAGAGAACAACAGTAGGAGAAACAGAAGTAACACTGGTAGAGTATGCATAGGGACTTGTGAAAGAGACAGGAAGACAAAGCAACTGATAGGGAAGGAAAGGGGGTTGGGAGGGATGAAGAAACAACAACAACACCAAAAAGAACAGAAAGAGGAAAATGGTGTTGATGGTGCATGGATGAGAAAACTGGAAAAGATCGGGAAAGGGTATTTGAGAAGGAAGGCAGAGGGCCATTGACCAGAGTAACAGCTTCTAGAGAACTTGAGGGATGGAAACAAGATGTGGCCACAAGTCTGAAATCACAGTACTCCTGATGCTGAGGCAGAAAGATCCTAGGTTTGAGGCCAGCCTGGGAAGGAGTACCAACCTAAAAAAGCAACAACTGCAACAGGAAATGCATGGAGGTATACATGGACACATGGATTTCTGTTTTTCTTTTTCTTTTCTTTTTTCTTTTTAGCTGTGAAGAATAAATCATGATAGTTGCAGAAAAATGGATGCAACTGGAAGCCATGTTTGGTAGAGTAAAACAGTCAGACAAATACTGAATGTTTTTTATGCAAAAATTAGATTCAAATGATAAATGTTTGTGTATATGTGTTTTTTGCATTTGTATGTTTATAGGTCATGAAAATAGAGGGGTCATGGGTCAGGCATGGTGTTACACGCCTTTAATCCTAGCACTTGGGAGGCAGAGGCAGGCAGATCTCTTGAGTTTGAGGCCAGCCTGGTCAACAAAGCAAATCCAGGACAGGGCTGTTACATAGAGAAACCCCATCTTGAAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000001072:ENSRNOT00000001418:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.207
Domain overlap (PFAM):
C1:
PF0379811=TRAM_LAG1_CLN8=PD(21.6=79.2)
A:
NA
C2:
NO
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:
ATTGTGCTCCTGGGGATGCTA
R:
ATCCCATTCTTCAGCTGGGGA
Band lengths:
179-272
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]