BtaINT0037067 @ bosTau6
Intron Retention
Gene
ENSBTAG00000003434 | CERS4
Description
Bos taurus ceramide synthase 4 (CERS4), mRNA. [Source:RefSeq mRNA;Acc:NM_001015520]
Coordinates
chr7:18162718-18163612:+
Coord C1 exon
chr7:18162718-18162874
Coord A exon
chr7:18162875-18163119
Coord C2 exon
chr7:18163120-18163612
Length
245 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGGG
5' ss Score
9.46
3' ss Seq
TGCCTCCTCCTCTTCCCCAGATG
3' ss Score
11
Exon sequences
Seq C1 exon
GATCCTCTATACCACTTTCTTCGAGTCCATTGGCAACTTCAGCCCCTTCTTCGGCTACTACTTCTTGAACATACTTCTGGTGATTCTACAGCTGCTGCATGTGTTCTGGTCTTGGCTCATCCTTTGCATGATCTACAGCTTCATAAAGAAAGGCCAG
Seq A exon
GTAGGGAGTCTGGTGGTTAAGACTCCATGCTGCCAATGCAGGGGGCGCAGGTTCAATCTCTGGTCGGGGGAACCAAGATCCCCTGTGCGGTGCTCGGGGCCAAAAAAAAAAAAAAAAAGTTAATTAATTAACAAATAAATTTATAAAGGAAAGAAAGACCAGATAGGGCCGGGGTAGTGTTGGCTAGCGGCATGCCTCTCTGGGGCCCCAGCCAAGCCAGTCCCCTGCCTCCTCCTCTTCCCCAG
Seq C2 exon
ATGGAGAAGGATGTTCGCAGTGACGTGGAGGAGTTAGACTCCAGCGATGGGGAGGCAGCCGAGGAGTGTCCTCAGATGAAGAATGGGGCGGCACAGCGGCCCGGAGCAGCCCCCACTGACGGCCCTCGGAGCCGGGCAGCCGGTCGCATGGTTAACCGGCATACACCAGCCACGTAGCCGGCCAGAGGACTGGCCGCGAGGGGGGCTGCCCCAGCGTCGGGGGCAGCTCTGATATGTGGGGCGGCTGGACTGCGGGATCTCGGGCAGACTTTGTGGAGACAAGGGAGGGCCCCAGGTGGCGCTGATGATCGGTCTCCAGCCCCTTCCTTCAACCCACCCTCCCACCTTCTCTGAACAACCAACAGAGCTGGGGGAAGAGGGGCGGCGGGCAGCTACAACGACACGCCAGCCCGCTAGCGCCACCTGCAGGCTGCAGCTGGCAACTGTGAAGAGCGCCGGGCGGAAAGGGGTCCAATAAACCTTGACCGGAGCC
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000003434:ENSBTAT00000004459:10
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.638
Domain overlap (PFAM):
C1:
PF0379811=TRAM_LAG1_CLN8=PD(21.6=79.2)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAACTTCAGCCCCTTCTTCGG
R:
GCTGGTGTATGCCGGTTAACC
Band lengths:
294-539
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]