DreINT0045472 @ danRer10
Intron Retention
Gene
ENSDARG00000031387 | cers4a
Description
ceramide synthase 4a [Source:ZFIN;Acc:ZDB-GENE-020808-1]
Coordinates
chr22:4346475-4348731:+
Coord C1 exon
chr22:4346475-4346631
Coord A exon
chr22:4346632-4348162
Coord C2 exon
chr22:4348163-4348731
Length
1531 bp
Sequences
Splice sites
5' ss Seq
AAAGTGAGT
5' ss Score
8.4
3' ss Seq
ATAGCAACTGTGTTTTTAAGGTG
3' ss Score
5.55
Exon sequences
Seq C1 exon
AATCGTCTACACCGCTGTGGTGGATTCATTGGACGTATTTTCTCCATACCCTGGCTATTATTTCTTTAACGGCCTGTTACTGGTTCTTCAAGCTCTGCACATCTTTTGGGCTTGGCTGATTCTTCGAATGGTTCACAAATTTGTCTTTTTAGGCAAA
Seq A exon
GTGAGTATCTATGTTGAAAACAAATACTTTATCCTTTCACTTTACATATAAAGCACTTTACAACTACACATGCATGCCAAAGTGCTGGACAAGCAAATAAAGAAAAGCACATAAGATACATAAAAACAAGTCATTTAAACACATTTAGTGATATTATCTCCCTAAATTCATATGGAAATCTGACCTATGTATGGCACTATATATATGAATATATAAATACAGTTGAAGTCAAAATTATTAGCCCCCCTTTTAATTTTTATTTATTTTTTTTATATTTCTCAAATGATGTTTAACAGAGCAAGGACATTTTCACAGTATGTCTGATAATATTTTTTCTTCTGGAGAAAGTCTTATTTGATTTATTTTGGCTAGAATAAAAGCAGTTTTTTTTAACACCATTTAAGAACAAAATTATTAGCCGCTTTAAGCCAATTTGTTTTTCGACTGTCTACACTCTACAGCAGAGGTTCTCAAAGTGGGGGTCGGGACCCCCCGAGGGGTCGCGGGACAATGAAGGGGGGTCACCTGGTGATTTTCAAAAATCAATTAATTTTTATTAAACCTTAAGACTTACTGTATTTTATCAATAATAGTTACTATGAACTATATAGTTACTATAGTAGCTTATAGTTACTAGTTCTATTGGATTGCGACTATTTGGGTAATTACATTATACTGAAGGCACAGCAATACTGTCAGATGCAGCAGATTTTGTAACACCAGGTTAAACTTTCTAGCCCATTTACAGCACTGACATACATAAAAAAAAATAAAAAAAAACAAAGAATAGACTTGGGTCTATTGGTGTGTGTGCGTCATTGCATACAAGGTTTCTATATTTATAACCACCACCTCAGAGAATATTGGGGGTCACGAGTCACTGGCATTCTCATTTTGGGGGTCGCAGGCTGAAAAGTTTGGGAACCCCTGCTCTACAGAACAAACCGTCGCTGTACAATGACTTGCCTAATTACCCTAATCCGCCTAGTTAACCTAATTAACCTAGTTAAGCCTTTAAATGTCACTTTAAGCTGTATAGAAGTGTCTTGAAGAATATCTAGTCAAATATTATTTACTGCCATCATGACAAAGATAAAATAAATCAGTTATTAGAGATGAGTTATTGAAACTATTATGTGCAGAAATGTGCTGAAAAAATCTGTTAAACAGAAATTAGGGAAAAAATAAACAGGGAGGCTAAAAATTCAGACCTCAACTGTATATATACACACAATTATAGCTAATATATTTGAACATATATGTACAGTCATTATTCCAATGGCTGAAAAATATATAGGTAAACATTTCTGCAAAATTTCGAAATGTATATGTTATATGCATATATGATATTTTATACATGTGAAATCCAAATATGAACTTGCATGTCATATGTCATTTGCATATTGCCAGATTTCCGTATGGGGTGAGGCCGGCTATTCCACAGCCTCATTATAGAAAAAATGAATAGATGTAGGGTTATCCTCTTCTCTAAATGTTACAGTAGTTTAAAAATAGCAACTGTGTTTTTAAG
Seq C2 exon
GTGGAACGAGATGAACGGAGTGACGATGAAAGCGAGCCTGATGAGGATGATGAAGTCGGAGAAGAAGAAGAAGAGCGCAGCTGGGAGCACAAAAAGGGTGCACTTAATTCAAAACTGGCTTCTTTGGCCAATAACTGTGTTTTGAACAATTTAACGAACCAGAGACAAAAAATGAATAGTAGAACACTGAAGGAGAGATAGTGAATCCACTGTATGCATTTAAAGAGACAGTTCACCCAAAAATAAAAATGAGTTTCCTTCTGTTGAACACAATGAAGATATTCTGAAGAATGGTGGAAAAGACAACCACTGACTACAATAATACTTTTGGACATCATTTTCTGCTTTTCCCCAAACATTCTTCAAATTATCTTATTTTATGTTCAACAGAAAAAAACTACAATCTTTAAAACCACTTGAGCGTGAGTAAAAGAAAGGTGAACTATCCCTTTAAGTGTTTCGCTTTTAACTCACTTTCTTAGCTTTCTTGTTTGTCAAGGTTTAACTCTTAACTTCATATTTTGGTTTCATAACTATAATAAATAATACAATTTATGTTGTTACCATTA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000031387:ENSDART00000042194:10
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.455
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
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGGCTTGGCTGATTCTTCGAA
R:
GGTTGTCTTTTCCACCATTCTTCA
Band lengths:
358-1889
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]