RnoINT0034880 @ rn6
Intron Retention
Gene
ENSRNOG00000001072 | Cers4
Description
ceramide synthase 4 [Source:RGD Symbol;Acc:1309303]
Coordinates
chr12:4442003-4444290:-
Coord C1 exon
chr12:4444184-4444290
Coord A exon
chr12:4442160-4444183
Coord C2 exon
chr12:4442003-4442159
Length
2024 bp
Sequences
Splice sites
5' ss Seq
CGAGTAAGT
5' ss Score
10.15
3' ss Seq
CTTTTTGCCTCCTGCTTTAGGGT
3' ss Score
10.85
Exon sequences
Seq C1 exon
GGCTGTAAGATGCTCAACTATGCCCACTTTCAGCGAGGGTGCGATACTCTTTTCATCATCTTCTCCTTAGTCTTCTTCTACACACGCCTCGTATTCTTCCCCACCGA
Seq A exon
GTAAGTCCTGAGGATTTAGGGAGAGGGTAGGGTGTGTCCAGGATCCTGGCAGGCCTCACCCTTGGTGCCCTACCTCAGTGAACTGGAGGTGTTGGCTGGGAGTTTTGCAGAGTACAACATATGCAAAGGCGGCAGAGAGGTAAGAGAAACAGAAACCTGAGGACAGCACTAGTGTAGTGCAGTCTCAGAACAAGGAAGCGAGAAGAGGACACTGTCTGAGTGCCTGGTTGCTAAGCTTGTCCAGTAAATGTTTTGTTATATTTGTTGAGCCTGGAATGTGTCAGAAAGCGAAGAGATATCAAAGAGAGCAGTGCAGACGACTGCCTCCTGGGTGAGAAAAAGGGTAGATAGCAAACAAGCAGAACACAAGTTGCAAAGCATCGATAACACTGAAAAGGAAGTAAGACTGGGAGTGTGCAGGAAGCACGTGTATGAGTGGTTGGCCTTCGATGAGTATCTCTCAAGGGACATTTCACTGATAGCATCATATACAGAGAATGAATGGGGCTCACGAGTCATGGATCATAGAGGAAGATGGTCCAGGTGGAGGGAACAGCATGTGCTCTGTGAGGCTAGACTGTTCCAGCATCAGAGAGGAGAAATGAGTCCATATGGTTGCAACAGAGAAAAGGCTAAGATGAATGCAGGTAGGTGACCAGGGCAAGTCATGAAGGATCTTAGGGATGCTATCCAAAGGGAGATAGGAGCCATGGCGAGTTGAGGGGCAGATGCTGGGATGCTGGGACAGATGAACCAGAGCAGGTGAGGAGACCAGACTGAAGAGACACCATCAGGTCTGGGAGAAACTTCAGGGGGCATCAGCAGTCCAGTTGCTTTGTGCTGGTTTTGAGCTGTGCTCCTTTGTAGACTTGGGGGAGGCAAATGGCATTCCAGGCTGAGTTTTCTAGGAGGGTGGGGTGTAAATGCAGGCATTGCCAGGTTGTAGGCATTTGCAGCAGGAGGAGGGACAGTGTCACCTGGGGAAAGGTGTGGATACGAGCCAAATCCTGGAGCTCCCTGATGGAGAAGTTATGGAATCCCTAGCAAAGCTCAGTGGTAAAGAGTTTGCCTAGTGCCTGTTAGGTACAGGATAGGTGAGGGGAGAGAGAAGAGGATAGGGAGTGGAAGAGAGAGAAGGAAGGGGGAAAGAATATAAAGGGGGAAGATGGAGGGAAAGATAGAAGAAAGAAGGTAAAAAGAAAGGGGAGAGGACAAAGAAAAATGGAGAAGAGAAAAGGAAAGAAAAAGAGGATGTGGAAGATGGAGATGGAGGACAGGTATGGGAGAGAAAGAGAAGGAGATGAGTGTGGAGGAAGAGAAAGGGAGATGAGTGGGAGAGGGAAGAAAGGAGGAGGAGGAAGGGATATGAGTGTGGAGGAGGGATGAAGGAGAGGAGGAGGAAGAGGAGAAGGAGGGAGATAGATGTGGAGGAGGGAGAGGCGTGTGCTCCTAGAAAGTGCTAGATTCTAGGGGAAAAGAAACGAAGTAGCAGGGGCAAAGATTGGTCATGGGTGTGTGACTGGATTTTTCTTTCTGGCATATGAAATAGCAGCAGGATTGGTTTTGATGGTAATGGGTGTGTGTAGGAAACCAGCTGTGTGTGACTTTGCTGAAGAAACAGTGTGAGCAGAGCTGCGGTTAAAGACTGTCTGGGGACAGCTGGCAAGAGGGCGGAGGTACAGGGAGAGCCGGTTCAGGAACATTGTTTCTGAATGGCTTCTGGTAGCTCTGTGAGGTGAGTAGTTAGGTCTCAGGTTGATGCGAAGTCATTGTGTATCTAAGGAGAGATGAGTAACCATGGAGGGTCACTGAGAAGGGCCAGTGGGACACTAGGTACTGCCTTGGAGCTTGGAGTTTAGAAAGGCCAGCTGACAAATTGTATGTTCCACTGTCTTAATGTAAGCAGGTGACCATCTAAGGATGGGGGAACCAGGGAGGTTTGGGAGCACAGAGTTCATCCACACAAGTTCATAGAACAAGGAGCTATACCAATTGGTGAAACTCCTTTTTGCCTCCTGCTTTAG
Seq C2 exon
GGTCATCTACACTGCTGTGTTTGACTCAATCAAGAACTCAGGCCCCTTCTTTGGCTACTACTTCTTTATTGTGCTCCTGGGGATGCTACAGATTCTTCATGTGTACTGGTTCTGCCTCATCCTGCGCATGATCTGCAGTTTCCTGAGGAAGGGTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000001072:ENSRNOT00000001418:10
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(18.0=100)
A:
NA
C2:
PF0379811=TRAM_LAG1_CLN8=PD(21.6=79.2)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]