BtaINT0037065 @ bosTau6
Intron Retention
Gene
ENSBTAG00000000099 | CERS2
Description
Bos taurus ceramide synthase 2 (CERS2), mRNA. [Source:RefSeq mRNA;Acc:NM_001034667]
Coordinates
chr3:19842075-19842461:+
Coord C1 exon
chr3:19842075-19842181
Coord A exon
chr3:19842182-19842307
Coord C2 exon
chr3:19842308-19842461
Length
126 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGT
5' ss Score
10.1
3' ss Seq
TTGTCTCTCCCCATCCCAAGGAT
3' ss Score
8.33
Exon sequences
Seq C1 exon
TCAGCCAAGATGTTTAACTACGCGGGATGGAAAAACACCTGCAACAACATCTTCATCGTCTTCGCCATTGTCTTCATCATCACCCGACTGGTCATCCTGCCCTTCTG
Seq A exon
GTGAGTAGGATACCAGACTAGACTGTTTGAAGAAATCAGGAATCTTCTCCCTGGCCCCATTTGTCTGTCCTCAGTCTTGACCCCCTCTTTTCTGTGTTAACAGTTCTTGTCTCTCCCCATCCCAAG
Seq C2 exon
GATCCTGCACTGCACGCTGGTGTACCCACTGGAGCTCTATCCCGCCTTCTTTGGCTATTACTTCTTCAATTTCATGATGGGAGTGCTACAGCTGCTGCATATCTTCTGGGCCTACCTCATTTTGCGCATGGCCCACAAGTTCATAACTGGAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000000099:ENSBTAT00000000109:9
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=80.8)
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:
TGTTTAACTACGCGGGATGGA
R:
TATGAACTTGTGGGCCATGCG
Band lengths:
242-368
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]