RnoINT0034860 @ rn6
Intron Retention
Gene
ENSRNOG00000021138 | Cers2
Description
ceramide synthase 2 [Source:RGD Symbol;Acc:1310059]
Coordinates
chr2:196494672-196495904:+
Coord C1 exon
chr2:196494672-196494825
Coord A exon
chr2:196494826-196494989
Coord C2 exon
chr2:196494990-196495904
Length
164 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGG
5' ss Score
9.16
3' ss Seq
CCTTTTTGTCCTTTTCACAGCTG
3' ss Score
10.2
Exon sequences
Seq C1 exon
GATCCTCCACTGCACAATGATATACCCACTGGAGTTCTACCCTGCCTTCTTTGGCTATTACTTCTTCAATTCCATGATGGTAGTGCTACAGATGCTCCATGTCTTCTGGGCCTACTTCATTGTGCGCATGGCCCACAAGTTCATAACTGGAAAG
Seq A exon
GTGAGGAAGGCCCACCCTCCTCCTGCAGGTCCCTCACCCTGTTAACGCCCCAATGCCTTGTCATGCCAGCAACTCTCTTTTAAAAAGCATGAGGTTTTGGGGGTTAACTTAGAGACAGCCCTTGGATACTGAAGGATACATAACCCTTTTTGTCCTTTTCACAG
Seq C2 exon
CTGGTAGAAGATGAACGCAGTGACAGAGAAGAAACAGAGAGTTCAGAGGGGGAGGAGGCTGCAGCTGGGGCAGGAGCAAAGAGCCGACTCCTAGCTAATGGCCACCCCATCCTCAATAACAACCATCCTAAGAATGACTGAACCGTTGTCCTAGCTGCCTCCCACATCAATACGCGAAGCCAAGAAACTAGCCAAGCTTCCCTGTAGGGGCATTTGAGCTCTGGGGAGAAAGGATATGAGGAGTGGTCTATGTTGACCTCCCTTCTTTTTTCACCCAGTTGCCTTTAAACCAGACTCTAAACAGCCGGTCTCCAGGTAGAAAGGAGGCTTGGCTGTATCCTGTTGAGACGGGACTGTCTGGTCTCATTTCCCTCTCTACCTTCCAAGCTACCCTTTCTCCTGCTAACCCTTCTCAGCTCTAAGGGTTGGAGTCATAACTCACATTCTTCATTCCTAAGAATCTGGAGCTAGCTGTTTGCCTTTGACTCCCTGACTTCAAGCCAGGGTTGTGCCTTACTGTCCCTTTTCTGGGCCTCATTCTGCCAAAGCTGGACCAAGGTTCCACCTTTCTAAGCTCCCTAGCTCAGAGGCCAAAAATGAAAGCTGAGCTACTTTTAACTTTTTCTCTTCCTTAACTACAAGTCAATTAAGTGAAGGAGGGTATACATGCCCTCACCCTACCCCAGGGACCATGGTTCCTAGATCTCACTGCCTCCTATTTCTGGCCTCCCTTTTCCCCTCCCTTCAGCTAAGACAAGCTGGTGTGGAGTAGAAGGGCAACTAGTTCTGTTATTTATTGAACATTTGGGGTTTCAGTTGCAAAGCCAGAACTACAGCTACCTGGCATTTCGGCGAGGGACCATTTCAGACCAAAATGTACTGTTAATTTTTTTTAATTAAAGTATATTAAAGGTT
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000021138:ENSRNOT00000028699:10
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.413
Domain overlap (PFAM):
C1:
PF0379811=TRAM_LAG1_CLN8=PD(21.6=80.8)
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:
GATGCTCCATGTCTTCTGGGC
R:
GCTTCGCGTATTGATGTGGGA
Band lengths:
244-408
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]