BtaINT0037062 @ bosTau6
Intron Retention
Gene
ENSBTAG00000000099 | CERS2
Description
Bos taurus ceramide synthase 2 (CERS2), mRNA. [Source:RefSeq mRNA;Acc:NM_001034667]
Coordinates
chr3:19841178-19841558:+
Coord C1 exon
chr3:19841178-19841228
Coord A exon
chr3:19841229-19841465
Coord C2 exon
chr3:19841466-19841558
Length
237 bp
Sequences
Splice sites
5' ss Seq
CAGGTACAT
5' ss Score
7.79
3' ss Seq
CTTCCTCTTTTCTCTCTCAGAGC
3' ss Score
12.36
Exon sequences
Seq C1 exon
AAACCCTGGTTCTATGACCTGAGGAAAGTTTGGGAGGGATATCCCATACAG
Seq A exon
GTACATGATGGGTCCTGATTCCTTATATGGGGTAATTAGTCCTTATGTGGGGTGAGAATCAGTGTAGGATAGGATTGGGACATACACATCCTTGTGAAGAGTTGATCTCAGACACGTGGCAGAAGGGACTGCAGTCATGGTGTTAATCTTAAGTGCAAGGAGGGCTGGGTTTGGAGAGGCGAGACCATTGGGTCCAGTGGCTCTGGGGTCCGTTAAACTTCCTCTTTTCTCTCTCAG
Seq C2 exon
AGCATCATCCCTTCCCAGTATTGGTACTACATGATTGAACTGTCTTTCTACTGGTCCTTGCTCTTCAGCATTGCTTCTGACGTCAAGCGAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000000099:ENSBTAT00000000109:6
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(8.2=100)
A:
NA
C2:
PF0379811=TRAM_LAG1_CLN8=FE(15.5=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:
ACCCTGGTTCTATGACCTGAGG
R:
TTCGCTTGACGTCAGAAGCAA
Band lengths:
140-377
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]