BtaINT0037061 @ bosTau6
Intron Retention
Gene
ENSBTAG00000000099 | CERS2
Description
Bos taurus ceramide synthase 2 (CERS2), mRNA. [Source:RefSeq mRNA;Acc:NM_001034667]
Coordinates
chr3:19841004-19841228:+
Coord C1 exon
chr3:19841004-19841061
Coord A exon
chr3:19841062-19841177
Coord C2 exon
chr3:19841178-19841228
Length
116 bp
Sequences
Splice sites
5' ss Seq
GACGTGAGT
5' ss Score
9.22
3' ss Seq
TTATTACCATTTCTCTGCAGAAA
3' ss Score
9.65
Exon sequences
Seq C1 exon
CTGGAGATTCACATTTTACCTGATTGCTTTCATCGCCGGCACGGCCGTCATTGTAGAC
Seq A exon
GTGAGTGGGGATTACTTGGGGAGGGCAAGTGGGGGAGTAGGTTCTCTGGCAAGGTGGGGTGAAGCCCAGAATTTAGGTGCCTCCTCCTTTAACCTCTTATTACCATTTCTCTGCAG
Seq C2 exon
AAACCCTGGTTCTATGACCTGAGGAAAGTTTGGGAGGGATATCCCATACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000000099:ENSBTAT00000000109:5
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(9.8=100)
A:
NA
C2:
PF0379811=TRAM_LAG1_CLN8=FE(8.2=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:
TGGAGATTCACATTTTACCTGATTGC
R:
GGATATCCCTCCCAAACTTTCCT
Band lengths:
101-217
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]