DreINT0131725 @ danRer10
Intron Retention
Gene
ENSDARG00000016611 | scrn3
Description
secernin 3 [Source:ZFIN;Acc:ZDB-GENE-030131-4783]
Coordinates
chr9:2518463-2519247:-
Coord C1 exon
chr9:2519066-2519247
Coord A exon
chr9:2518663-2519065
Coord C2 exon
chr9:2518463-2518662
Length
403 bp
Sequences
Splice sites
5' ss Seq
CCGGTGAGT
5' ss Score
10.9
3' ss Seq
TGCTCTGCTTGTGTGTTCAGGCT
3' ss Score
8.38
Exon sequences
Seq C1 exon
TGCACGTATATAGAAATCGAGCAGGTGGAAAAGACGTTTGCAGTGGTGCTGAGTCGCCCCGCCTGGCTGTGGGGGGCAGAGATGGGGGCAAATGAGCATCAGGTGTGCATTGGGAACGAGGCAGTGTGGGGCAGAGAGAGCGCGGATGGTGACGAGGCACTTCTGGGCATGGATCTTGTCCG
Seq A exon
GTGAGTCAGCAAATATTGCAATGATTATCACAGAAAAAAAAATATTAGAATGTCAGATTTTTCCAATATCATGCAGTCCTAATTCATATTTAGCATTTCAGCTTTTCAAAATTTTGCAGCTTTATTAAAAATGTATATAATAATGATAATAATAATAATAATAGCAATAAAAAATATAGTTGCAAGCAGCAATTAAGGGGGCAAGGAGTTCAGAGCCAGAATGAGCAAAGCAGCCCAGAGGCCAATAGCAGCAAGGTTAATAAGAAGCAACAGACAAAGTGAAACGACGGGTTTTTTCTAATACATTTTATCGTCATTCTTCAAAACAAGTAAACACATGCAGGTTTTGAATGGTGACTGAATGACTGTGGTGTAAATCTGCATGCTCTGCTTGTGTGTTCAG
Seq C2 exon
GCTGGCTCTGGAGCGGGCCGACACGGCGGAGAAAGCTGTGGACGTCATCACAGATCTGCTGGAGAAATACGGCCAGGGAGGAAACTGCATGGAGGACGAGTGTGGATTCACGTACCACAACAGCTTCCTCATATCAGACCGCAAAGAAGCCTGGGTGCTGGAGACTGCTGGGAAACACTGGGCTGCGGAGAGAGTGGAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000016611:ENSDART00000016710:3
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:
PF0357710=Peptidase_C69=PU(26.3=98.4)
A:
NA
C2:
PF0357710=Peptidase_C69=FE(29.4=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCAGGTGGAAAAGACGTTTGC
R:
CAGTGTTTCCCAGCAGTCTCC
Band lengths:
342-745
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]