DreINT0131728 @ danRer10
Intron Retention
Gene
ENSDARG00000016611 | scrn3
Description
secernin 3 [Source:ZFIN;Acc:ZDB-GENE-030131-4783]
Coordinates
chr9:2513916-2514644:-
Coord C1 exon
chr9:2514482-2514644
Coord A exon
chr9:2514097-2514481
Coord C2 exon
chr9:2513916-2514096
Length
385 bp
Sequences
Splice sites
5' ss Seq
ACGGTACGC
5' ss Score
9.85
3' ss Seq
TTACTCTCTCTAATCCACAGGTC
3' ss Score
11.6
Exon sequences
Seq C1 exon
GCCACATCTCTGCACAGACGATGATGGATATTTTGCGGGATAAGGAGAGCGGGATCAACATGGAGGGGATGTTCATGAGCACAGGCAGTATGGTGTCTGTCATCCCCAAAGCTGATCATTTACCCGGAGTCCACTTCTTCACCGCCACTCCAGACCCCGAACG
Seq A exon
GTACGCCAGGAGAGAGGATATTAAAGGGATAGTTCACAGAAAAAATAATCATTCTGTCCTTTACTCGCTCTTGTTTCCAACCTTTATGGATTTCTTTCTTCTGTTGAACACAAAAGAAGATATTTCGAAAAATGTTGGGAACTTGTAACCATTGACTTCTATAGTATGTGTTTTTCCTACAGTGGAAGTCAATGGTTACAGCTTTCTTCGAAATATCTTCTTTAGTGTTTAACAGAAGAACGAAACGTACGTTTATTGTGGCAAAAATTAATGGTTTTTTAATAGCGAGAATTAAAAAGTGTGACTAAATTATGTTTTAATATGTGCAAACTCTTGACATGACTGTAACGGCGCGTGTGTTTCATTTACTCTCTCTAATCCACAG
Seq C2 exon
GTCTGTGTTTAAGCCGTTTGTGTTTGTGTCTGACGTGCCGCCGCTGAAACACACCAGTTCTCCATGTTTCGGGGAGGAGGATCCAGTGAAGAAGAAGCCCCGTTTCCAGAGCAAACCCAACCGCAAACACCCGCTGTTCCTGAAGCACGAGGTGGCGGCGGCCATCATCGACAGCTCTGGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000016611:ENSDART00000016710:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.091 A=NA C2=0.361
Domain overlap (PFAM):
C1:
PF0357710=Peptidase_C69=PD(12.7=52.7)
A:
NA
C2:
NO
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:
CCACATCTCTGCACAGACGAT
R:
CCAGAGCTGTCGATGATGGC
Band lengths:
342-727
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]