DreINT0131726 @ danRer10
Intron Retention
Gene
ENSDARG00000016611 | scrn3
Description
secernin 3 [Source:ZFIN;Acc:ZDB-GENE-030131-4783]
Coordinates
chr9:2517015-2518662:-
Coord C1 exon
chr9:2518463-2518662
Coord A exon
chr9:2517228-2518462
Coord C2 exon
chr9:2517015-2517227
Length
1235 bp
Sequences
Splice sites
5' ss Seq
AGGGTAAAT
5' ss Score
5.83
3' ss Seq
TATGTTTCTCTGTCTTAAAGCCG
3' ss Score
7.69
Exon sequences
Seq C1 exon
GCTGGCTCTGGAGCGGGCCGACACGGCGGAGAAAGCTGTGGACGTCATCACAGATCTGCTGGAGAAATACGGCCAGGGAGGAAACTGCATGGAGGACGAGTGTGGATTCACGTACCACAACAGCTTCCTCATATCAGACCGCAAAGAAGCCTGGGTGCTGGAGACTGCTGGGAAACACTGGGCTGCGGAGAGAGTGGAGG
Seq A exon
GTAAATTAGGAATTAGGGATTAGTAATTAATTTAATATAAAGTTAATATTGAGATATTTAAAAGATGTTTTATTTGTACTGCACTGTGTTCACCTCATGGAAAAGTAAAGCAGTCTTGTGGAGACCTGTGGATGTCATGTGTGTTTTATTCTGCATATGCTGATCACATTTCTTCTAAATTTAAAATAACACTATTGTCATTTATAGCATTTTTTTGCAACAAAAAAAGTGTTTGTATTCATTTTTAGACAGTAAATTACATATGTTTTACTTCAGAAGTGTCTTTACTTTTAAAACTTGTGCTGGAACATGCCAGATCTGGATCTGTCACCTCCGAAATCGGATCTGGCTCCTCATTTTACCGATCACCCTCCTCAACTGCCCTCCTCCTGCTGCTGTTCACTTTCCCTTTCTTCCGGATTCTTTACCCCGATCTGTTCCGTGACTTCGCAATTCACATATTAAGCACTGCATACCTGGATATAATTCATGTAAATTTGTGTAAGCAAGTGCAAAATATTTATTTTGGAAGATACAATAGGCTCTAATATTGTATTGTTCGTTCTATATGATGAAGTATTGCTTGTCTTTGATGAATAATACAGAAGAAAAAGGTCATTTTTATCCCTATTTTTTATAATATAATTTATTTTTAATATTATTAATATATAATATTCATGTATAACATATTATAAAAAATATTATAATCTATATTAATAATATAATACTTTTTTACTATTATTGCATATAAAATCCCATTTGCAATATTGTAAAAATAAATCAATAAATATATTATACACAATAAGAATATTTTCTAAATATATGTAATATGTATATTGTATAATAATAATAATATTATAATATAATATATTATTATTATTATTATTATTATTATTATAAATATTGCATATAAAATGACAATAAATACAATCACAAAAATAAGCAATAATAAAATGATCTAAAGTTTTTTATTGCACATAAATATTGTTATATAATTTTTAATTATTTATTTTTATTTGATTTATTATTATTATTTTATTATTATTATAAAATGTATTATTAATTTTTAAAAATGTAAAACAATGTATAACATATTAAATGAATAATTATTAATAATGATATGATATTAATAGTAATTATTATTATTATTAATAATATTAACAAAATTAAAATGTAATATTATTAATAACAATATTGGTTAAAAAAATTAATTAATATGTTTCTCTGTCTTAAAG
Seq C2 exon
CCGGCTACAGGAACATCTCCAATCAGTACTCCATTACTACTAAGATTGACAAGGAGCACCCGGGGATGAGGACGTACGCGAAAGAGCAGGGCTGGTGGGACGGAGAGAGCGAGTTCAGCTTTACTGATGTTTACTCGTACTCCAGCACCGCCCGCATCCAGGCGGCAGGCGGAAGATACTGTGAGGGACAGAAACTGCTGCAAAAGAGCAACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000016611:ENSDART00000016710:4
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=0.039
Domain overlap (PFAM):
C1:
PF0357710=Peptidase_C69=FE(29.4=100)
A:
NA
C2:
PF0357710=Peptidase_C69=FE(31.1=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:
CTGCTGGAGAAATACGGCCAG
R:
TTGCAGCAGTTTCTGTCCCTC
Band lengths:
348-1583
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]