DreINT0045443 @ danRer10
Intron Retention
Gene
ENSDARG00000013704 | cers2a
Description
ceramide synthase 2a [Source:ZFIN;Acc:ZDB-GENE-020808-2]
Coordinates
chr19:8856132-8858560:-
Coord C1 exon
chr19:8858407-8858560
Coord A exon
chr19:8856705-8858406
Coord C2 exon
chr19:8856132-8856704
Length
1702 bp
Sequences
Splice sites
5' ss Seq
AATGTAAGT
5' ss Score
8.62
3' ss Seq
CGCTTTTGTCATTCTTGCAGAAT
3' ss Score
10.12
Exon sequences
Seq C1 exon
GATCCTGCATTGCACCTGGGTGTATCCGGTGACTGTTTATCCTCCGTTTTTTGGGTATTACTTCTTCAACGGGCTGCTGTTTGTGCTGCAGTGTCTGCACATCTTCTGGGCCGTACTCATCCTGCGTATGGCTATCAAATTTTTGCCAGGCAAT
Seq A exon
GTAAGTCAACCTGTACAAACTGCACTGCTTTGCTTTTGTTTAGGTCTTTGACTCACAGTAGTTACAGGGATGTGATGTTTTTTTTAAACCCAAAGGCAAAATTGACCCTTAAAGTCAAATGTTAAGGTTACATATATTTGATGTAGAGTTGAAGTCAGAATTATTAGCCCTCCTGAATTGTTAGCACCCCCCCCCTGCTATTGAACAGAAAGGTTTTTTTCAACACTTTAAAAACAAACTGTAATAGTTTTAATAACTCATCTCTAATAACTGATTTCTTTAGTCTTTGCCATGAAGACAGTAAATAATATTTTACTAAATATTTTTCAAGAAACTAGTATTCAACTTAGGGATATTTAAAGACTTAAATAGGTTAATTAAGCAAGGTAGGGTAATTTGGCAAGTCATTGTATAACTGTGGATTATTCTGTAGACAATTGAAAAAATATAGCTTAAAGGAGCTAATAATTTTGACCTTAAAATGGTTTAAAAAAAAAATAAAAATAGCTTTTATTCTAGCTGAAATAAAACAATAAGACTTTATCCAGAAGAAAAAATATTATCAGACATACTGTGAAAATTTCCTTGCTCTGTTAAACATCATTTGTGAAAAATTTAAAAAAGAAAAAAAAATAAGGATAAAAAAAGGATCATTTTGTCTTCAGCTGTAAATGACTTCTCATGGTAACTTCTCAATTCCGGTCTTCAGGTCACCATTTTGTTTTTGTTGTTTTTCAGAAATGAGAGCATCTTGTTTTTATTGATTAATTAACAGTGTCAGTATAGACATTTGTCAAATGTTTGATATTTATTTATGGCAGTTTTATAAAGCCATTGTGTATTAGATAAGTTCTCTAATTTGGTCACTGAGACTAAGGCCCAATTCCAATTCTACCCATTAGCCCTCCCCCTTAATCTGTCCCAATTCTCTTTAGCTTGAAGACTTGTGAGGCTTGTAGGGCTAAAGGGAAGGGCTAGATACCCCTTGGATTTGAGTGTAGTCCTGAAAAATCTCAGTTTCAAGGGGTAAAAATTGCACAAATGGAGATGAGCAAATTAGTAGTTTTTTGTCATTATTATACTTTTTACAACAAACATAAGCTCTCTCGGCCACTGTAAGAACACAGATTTCATTACAATTTAAAACGACATCTTGGATATCTTTTCTGCTGAAGATCCTGTTAATACTAAAAAACTTAACAAACAAACCTAAAAACACCTTATAAATACAGCAGAAACGGTAAAGCGGAAAATTGGGGCGGTTTTAATACCTTGACTTTTTTTAAACAGCAGTTTACCTTGAAAACGGTTATCGTTCCATGCCTACCGTCATGTACGCTGTGTTTAGGTATTACCAATTACTACTATGAAAAATAGCTCATTTTATATGACACACACATGTCGAGTGTTGAGTTTTTTACTGTAAATACTATATATTCTCTCCCTCTACCAATAAAAACCCAACCCTCACAGGAAATGATCAACATTTTTACCTTTTCAAAATACTTCAATCTGAGCCGTTCATTAATGAGCTGTTTTCCTCATGAGGACCCAAAACCAAATGTCACAACAAGTTCAAAAATTAACTGGTATTATATACTTGTGGGGACATTTTGTAAACTGTCCCTTTAAGTGTTCTGAACCAAATGCATGAAATTGTGCCAAATATATTGCCATTTTAACGCTTTTGTCATTCTTGCAG
Seq C2 exon
AATATAGTGGAGGACGAAAGGAGCGACCGAGAAGAAACAGACTCTGAGGATGATGATGAGGAAGACGAGAAGGACAGGAGAGTGAAAAATGGACCAGTCCTGAACGGCCACTCGCCACTAAACAACAACCATCACCGTAAGACTGAGTGATGAGAGAAGAGGTACAACACTAGCCTTACAGACCAACAGACTCATGCTGACGGATCCAAAACACACAAACACGCACCATTCTAATGCTGTGGAACGGACAAACTTCCAGAAAGAGGATTGGTGTAACCCTTTCCCCACATTTAAAACACTATTAACAGGCCCCATGTTTAAATAATGTTGTTTTGTTGATGGTTGCCTTGCTTTACTGGTAATATTTCCTCCAGTTTATTCGATCTCAGTTCCTTTATGTTGTTTTGGGCATCGCACACACACACACACACACACACTAGAAATCATATTTCATTCTTTCTGGTCAGATTTCTCAGAATCCCTCAGTATTTGAGTTCTGACGTTGGCGGAGATTGACTGGAATTTTTTTTTGTGTCCACTTTACAATATAAGAGATTCACTAAGTGACCTTCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000013704:ENSDART00000025385:10
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.653
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
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGCATTGCACCTGGGTGTAT
R:
TGGATCCGTCAGCATGAGTCT
Band lengths:
358-2060
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]