BtaINT0037073 @ bosTau6
Intron Retention
Gene
ENSBTAG00000003434 | CERS4
Description
Bos taurus ceramide synthase 4 (CERS4), mRNA. [Source:RefSeq mRNA;Acc:NM_001015520]
Coordinates
chr7:18160227-18160659:+
Coord C1 exon
chr7:18160227-18160319
Coord A exon
chr7:18160320-18160530
Coord C2 exon
chr7:18160531-18160659
Length
211 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGG
5' ss Score
9.16
3' ss Seq
TAACCCTCCCTCTCACACAGGAC
3' ss Score
9.17
Exon sequences
Seq C1 exon
CCCCTGAAGCCAGGCCTGTACCACTGGTACCTCTTGGAGCTGAGTTTCTACATCTCTCTGCTGATGACACTGCCCTTTGACACCAAGCGCAAG
Seq A exon
GTGAGGCCAGGCCAAGACTCTGGCTGAGGAAGTGATGCCCTGGGATGATTATGACCCAGTTCCAGGTGGGGAGGGGTGGCCTTATCCCACACCCCAAGAACCTTGGCACCTCAGGGAGGTGGCAGGGTATCCATCCTCCAAGCAACCTCCCTGGGAGGGCCTGCTCCAGCCACCCAGCGTCATCCCAGCTGTAACCCTCCCTCTCACACAG
Seq C2 exon
GACTTCAAGGAGCAGGTGATTCATCACTTCGTGACCATCATCCTGATCAGCTTCTCCTACAGCTTGAACCTGCTGCGCATCGGCTCTCTGGTGCTGCTGCTGCACGACTCCGCCGATTACCTGCTAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000003434:ENSBTAT00000004459:7
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(15.5=100)
A:
NA
C2:
PF0379811=TRAM_LAG1_CLN8=FE(21.6=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:
CCAGGCCTGTACCACTGGTA
R:
TCTAGCAGGTAATCGGCGGAG
Band lengths:
212-423
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]