BtaINT0037064 @ bosTau6
Intron Retention
Gene
ENSBTAG00000000099 | CERS2
Description
Bos taurus ceramide synthase 2 (CERS2), mRNA. [Source:RefSeq mRNA;Acc:NM_001034667]
Coordinates
chr3:19841734-19842181:+
Coord C1 exon
chr3:19841734-19841862
Coord A exon
chr3:19841863-19842074
Coord C2 exon
chr3:19842075-19842181
Length
212 bp
Sequences
Splice sites
5' ss Seq
GAGGTCAGG
5' ss Score
4.94
3' ss Seq
GGTGGGGGCTATCTACACAGTCA
3' ss Score
2.18
Exon sequences
Seq C1 exon
GATTTCAAGGAGCAGATCATCCATCACGTGGCCACCATCATCCTCATCAGTTTCTCCTGGTTTGCCAATTACGTCCGAGCAGGGACTCTTATCATGGCTCTGCACGACTCTTCTGACTACCTGCTAGAG
Seq A exon
GTCAGGCTTCCTGGGCATTTCTTCAAGCCTAGAGACCTTGGTGCAGGTTCTTCTGTCCCTCTATCCTTTGCTTGGGGTAGTGGTGGGTGGGGGTGGGTGTTCCTGGGACCAAGGAGGTGGGGGCACAGAGCTAGTGTGGTTAAGTGGGATGTATGTATGAATGTATATGGGAGTCAGGAGCCCGTGATGATCGGTGGGGGCTATCTACACAG
Seq C2 exon
TCAGCCAAGATGTTTAACTACGCGGGATGGAAAAACACCTGCAACAACATCTTCATCGTCTTCGCCATTGTCTTCATCATCACCCGACTGGTCATCCTGCCCTTCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000000099:ENSBTAT00000000109:8
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(21.6=100)
A:
NA
C2:
PF0379811=TRAM_LAG1_CLN8=FE(18.0=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:
TTTCAAGGAGCAGATCATCCATCA
R:
GGCAGGATGACCAGTCGGG
Band lengths:
228-440
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]