BtaINT0037070 @ bosTau6
Intron Retention
Gene
ENSBTAG00000003434 | CERS4
Description
Bos taurus ceramide synthase 4 (CERS4), mRNA. [Source:RefSeq mRNA;Acc:NM_001015520]
Coordinates
chr7:18158938-18159217:+
Coord C1 exon
chr7:18158938-18159056
Coord A exon
chr7:18159057-18159159
Coord C2 exon
chr7:18159160-18159217
Length
103 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGC
5' ss Score
9.88
3' ss Seq
GGCTCCCTCCCCACCTGCAGCTG
3' ss Score
9.1
Exon sequences
Seq C1 exon
TCCCAGATGAACCTCCTGGCCACGCAGTGCGGCCTCACGCTGCGGCAGACTCAGTGCTGGTTCCGGAGACGCCGGAACCAGGACCGGCCCTGCCTGACCAAGAAGTTCTGTGAGTCCAG
Seq A exon
GTAAGCCCAGGGTGGGGCTGGTGAGGGGGGGTCTGGGGGTGCTGTGAGGGGGGCAGTCTGCTCCTTTGGCAGCTTGCTTCATGGGCTCCCTCCCCACCTGCAG
Seq C2 exon
CTGGAAGTTTGTCTTCTATCTGTGCTGCTTCGTCTGTGGAACCATGGTTCTTTATCAC
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000003434:ENSBTAT00000004459:4
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:
PF0004624=Homeobox=PD(58.0=72.5),PF0379811=TRAM_LAG1_CLN8=PU(2.6=12.5)
A:
NA
C2:
PF0379811=TRAM_LAG1_CLN8=FE(14.7=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:
TCCCAGATGAACCTCCTGGC
R:
CCATGGTTCCACAGACGAAGC
Band lengths:
166-269
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]