DreINT0045470 @ danRer10
Intron Retention
Gene
ENSDARG00000036337 | cers3b
Description
ceramide synthase 3b [Source:ZFIN;Acc:ZDB-GENE-080220-32]
Coordinates
chr18:7364083-7364904:+
Coord C1 exon
chr18:7364083-7364189
Coord A exon
chr18:7364190-7364269
Coord C2 exon
chr18:7364270-7364904
Length
80 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGT
5' ss Score
10.1
3' ss Seq
TGTCTCTGTGGTGTGTGCAGGCT
3' ss Score
8.27
Exon sequences
Seq C1 exon
TCTGCTAAAATGTTCAATTACGCCGGATGGGAGACGACCTGTAACAGTGTCTTTGTGGTGTTCGCGCTGGTCTTCATGGTAACCAGACTAATTATCTTCCCTTTCTG
Seq A exon
GTGAGTGTGTGACAGAGGTTAATGCGCGGGAGACCTCAGGGTTAAGTGTGTTCATTGGCGTGTCTCTGTGGTGTGTGCAG
Seq C2 exon
GCTGATTCACTGTACGTGGGTTTATCCTCTGGACCAGTTTGAACCCTTTTTCGGCTATTATTTCTTTAACGCCATGCTTATGGTGCTGCTGTTTTTGCACGTGTTCTGGGCCTCCCTCATCCTCCGCATGGTCAAAAAGTTTCTCTTTGGGAATGTAAGTATGATGTACTTCACATGTACGATCACACTGGTGTCATCAGCCTTGGCTGGTCCCTAAAGCATACAATCACACTGATGTGATTATAACGTTTAGAACACATCAACAACTGCATAAATTCAAATGTGACAGCACAGAAAGAGGTGTGCATCGTCATAAATCACAATTTATCTACGGTTGCAAACAAATAGCATTTATTTTAGGTTTCAGACATTCAAATACACATACCTACAATCAAAACATACATTTAATGTTTGTAAAACACACGCAGATTCACGTAAAATGCACACGGTTTATATTACTAGAATGTTTTCTTTTCTCTATTCCTCTCCCAGCTAAACAGTTGCTTACCTTCATATATTTCGGAAGAAAATTCTGAATAAACATGACATAATCGTAATATATGTTCTATCACATATTTGAGAGTCGGAGTATCATAATTTCACAATTATAATTACAACATTTGTCAATATTTACA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000036337:ENSDART00000052792:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0379811=TRAM_LAG1_CLN8=FE(18.0=100)
A:
NA
C2:
PF0379811=TRAM_LAG1_CLN8=PD(21.6=57.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGTGTCTTTGTGGTGTTCGCG
R:
AACACGTGCAAAAACAGCAGC
Band lengths:
167-247
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]