DreINT0045479 @ danRer10
Intron Retention
Gene
ENSDARG00000031387 | cers4a
Description
ceramide synthase 4a [Source:ZFIN;Acc:ZDB-GENE-020808-1]
Coordinates
chr22:4342236-4344441:+
Coord C1 exon
chr22:4342236-4342364
Coord A exon
chr22:4342365-4344334
Coord C2 exon
chr22:4344335-4344441
Length
1970 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAAT
5' ss Score
8.39
3' ss Seq
TCAATGTGTTTAATTTACAGTCA
3' ss Score
7.06
Exon sequences
Seq C1 exon
GACTTCCAAGAGCAAATCATCCACCACATCGCCACCATTTTCCTCATCGCGTTCTCATACTGTGCGAACTACGTGCGGGTGGGAACCCTGGTGATGCTCGTTCACGACTCGTCTGACTTCCTTCTGGAG
Seq A exon
GTAAATCGCACAATCCGATTGGCTGCTCTGTGAGCTTCTGTTATGACATCACAGATTGAGCATGAACACTCGTGATGTGGAATAAATAAGGAATAATTGACATAAACCACTACTGAAGTAGCATCATATCTTAAAACATTGGGATTTATTCACCTATACCCTACTTTCCAAAGCTTCAGCCACTGTTTAGATGTAGTATTTCAGACATTTGTCTGGTGTTTGTCTTTAAACTGTTCCTGTGTGCAGCACTAGTGTCTTACACATCTCATCCAAAGCCTTCTGCTGTGTTTTGATGTGAAAACCAAATCGTTCAGCGTAGTGGAGCTGCGATTCACTCAAAACCTGTCAGAACTACTTTAGCTGCGCATTTATCCGACAATAACCTAGGGCTGCTCGATTTTGGAAAAAATCATAATCACGATTATTGTAATCACGATTATTCTAAACGATTATCAGTTGAAGTCAAAATTATTAGCGCGCCTGAGAATTTTGTTTTTTTAAATAACTATTTCCCAAATTATGTTAAACAGAGCAAGGAATTTTAACAGTATTTCCTCTAATATTTTTTTTTCTTCTGGAGAAAGTCTTATTTGTTTTATTTTAGCTAGAATAAAAGATGTTTTAATTATTTTGAAAACCATTTCAAGGTCAATATTATTAGCCCCCTTAAGCGATATATTTTTGGATTGTCTGCAGAAGAATCTACTGTTATACAATGACTTGTCTCATTACTCTAATTAAGCCTTTGAATTGCACTTTAATCTGAATGCTTGTATTTTGAAAAACATCTAGTAAAATGTTATGTACTGTCATCATAGCAAAGATAAAACAAATCAGTAATTAGACATGATATATCAAAACTATTATGTTCAGAAATACGTTTAAAAAAAAAACTTCTTTCCATGAAACAGAAATTGGAGGAAAAGGGTTGCTAATATTCTGGAGGGCTAATAATTCTGACTTCAACTGTATATATATATATACAGTTATTTTCCACCCTGCAAAGGAAAGAGAAATAAATACAATAGAATAAAAATATGAAACAAACTGTGATTTAAGCATCTTCACCCTAAGAAAAACACTTTAGCTACAAAAATCCTTCAGTCAGGAGCAGTAGGGGATGTTCTTGTCGTTTGATTAATGATAAAACAGGCGGCAGCATTTCACACTGTCACTTTAATGGTTTCTCTTTCACGTGTCTTTTGATTCTCAACTCGTTTGTTTATTACGCAAATGAGGGTTAATATGAATAATCACTAATCACCGCGTTTTGACACCTATTTGACCATTAAAGTGCTCGCGTTAAGATTACTTTAGATGTCTGCGCTCCTCTGCTCGTCTCAGTGTGCGAATGAGACCGAATGCTGACCGCGTGCTTGTGCGCGTGTTGCGTTTTGAAATAAGAGTGAATGCTGACATCTGAGCCTACAAAAATATGTTTTAGTCCACTTCTAAATGGATTTTGGTGCAGTTCAGCTATGATATTAATGCAACACAAACCAAAAAAACATCTAAACTGACCAAAAACACAATCTGATGTGACAAGAAATAACCCTAAAAAACGAAATGTTGAATGTTCAGTAAGTTGCATCACATACTATACTGTACGTTGTAAAAGTCATTTCTTATTTTTGTTTCTCTTCAGTCTTAACAATGGCAATGCGAAATCCAATTGAACAAGGTCTTAACCTATTGTTTTGTTTTTGGGTTGAACAAATGAAGTAAACTGACCCATACGTGTGAACACACACAGTGAAGGTGAACAGAGTTCATTTTACCCAAGGTTTAGACTTGTCGGGTTCATTTTAACAAGTTGTACTAGGTTTTTTTTCTGCTTCAGGCGTAAATAACTACCAGGAAACAAAAGGTTCAGAAGTTCCCCTGATTGTTTCTTCCTCGAACAAAGATGCACATTTAAAATACCAGTCTGACAGACGATCACACTAATGATCAATGTGTTTAATTTACAG
Seq C2 exon
TCAGCCAAGATGTTTAACTACGCTGGATGGAGGAAGACCTGCGATGCCCTGTTTGTTGTTTTCGCTGCAGTTTTCTTAGTAACTCGCCTTATAGTTTTCCCTTTTAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000031387:ENSDART00000042194:8
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(21.6=100)
A:
NA
C2:
PF0379811=TRAM_LAG1_CLN8=FE(18.0=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:
TCCAAGAGCAAATCATCCACCA
R:
AAAAGGGAAAACTATAAGGCGAGT
Band lengths:
230-2200
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]