BtaINT0037057 @ bosTau6
Intron Retention
Gene
ENSBTAG00000000099 | CERS2
Description
Bos taurus ceramide synthase 2 (CERS2), mRNA. [Source:RefSeq mRNA;Acc:NM_001034667]
Coordinates
chr3:19842308-19843638:+
Coord C1 exon
chr3:19842308-19842461
Coord A exon
chr3:19842462-19842639
Coord C2 exon
chr3:19842640-19843638
Length
178 bp
Sequences
Splice sites
5' ss Seq
AAGGTAATG
5' ss Score
8.99
3' ss Seq
CCTGCTCATCCCTTTCACAGGTA
3' ss Score
11.5
Exon sequences
Seq C1 exon
GATCCTGCACTGCACGCTGGTGTACCCACTGGAGCTCTATCCCGCCTTCTTTGGCTATTACTTCTTCAATTTCATGATGGGAGTGCTACAGCTGCTGCATATCTTCTGGGCCTACCTCATTTTGCGCATGGCCCACAAGTTCATAACTGGAAAG
Seq A exon
GTAATGGTTCTGTCTCCATTCTGTAGGCCCTACTACTCTCAACTCTAGGAACGGCCCAAATTCCCTCCCATATCAGCAACCCTCTAAAACCTACTGTGGGGCCCTGGGTATAGCTGGAAAAAGCCCACCGAGAGAGGCAGTCCTTAGGGGTTGGTAACCCTGCTCATCCCTTTCACAG
Seq C2 exon
GTAGTAGAAGATGAACGCAGTGACCGGGAAGAAACAGAGAGCTCAGAGGGGGAGGAGGCTGCAGCTGGGGGAGGAGCAAAGAACCGGCCCCTGGCCAATGGCCACCCCATCCTCAACAACAACCATCGTAAGAATGACTGAACCATTGTCCCTGCTGCCCCTCAGATTAACGTATAAAGCCAAGGAAATACCCCACCCTCCCCACAGGGTCACTTTAAGCTCTGGGGAGAAGGAGAAAGCGAGAGGAGCGTGTTCTTCTCTGTGCCCCACCCCCTGCTACTGTCACCCAGTTGCCTTTAAACCAAATTCTTATCAGCCCATCTCCAGGAATGGGAGGTTGGCTATATCCTTTGTTGGGGGAGGGGGATTGGTCTTATTTTCCAAGTTGTCCTTTCTACTGATTTTGAGACCTTTCCTCAGTTCTGGGGGTGGGGGTTATAAGTCACATTCCTTACTCTTCAGAATCTGGCCCTGTCTGTCTGCCTTTGACTCCCTGACCTCCAGAGCCAGGGTCGTGCCTTACTGTCCCACCTGTGGGCCTCATTCTGCCAAAGTTGGACCAAGGCTCACCTTTCTAATCTCCCTAACTTGGACCAGAAACCAAAGCTGAGCTGACTTTTAACTTTTTCCCTTCTAAGATCCAAATGAACTGAGTGTAGGTGGGTGCACGTGACCCTTATCCTACCTCTGCCAAAAAGTGGGGGCCACAATGTGGACTGCTCAGACAGTCTTCTGTTACTTCTCTGCCAGCTGTCCCTGTAGTCACAGGTCCAAGATCTTACTGCCTCCTTTCTCTGGCCTCTTTCCCTAGGCTAGCTGGTTTGGAGTAGAATGGCAACTAGTTCTAATTTTTATTTATTAAACATTTGGGGTTTGGGTTTTAAAGCCTGAATTACAGCTAGCACCTGGCATTTCAGCAGAGGGACCACTTCAGACCAAAATGTACTGTTAATGGTTTTTTTTTTTAATTAAAATATATTAAAGATTAAGTAAAACATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000000099:ENSBTAT00000000109:10
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.500
Domain overlap (PFAM):
C1:
PF0379811=TRAM_LAG1_CLN8=PD(21.6=80.8)
A:
NA
C2:
NO
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:
GAGTGCTACAGCTGCTGCATA
R:
CGTTAATCTGAGGGGCAGCAG
Band lengths:
246-424
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]