DreINT0131757 @ danRer10
Intron Retention
Gene
ENSDARG00000037362 | scube2
Description
signal peptide, CUB domain, EGF-like 2 [Source:ZFIN;Acc:ZDB-GENE-050302-80]
Coordinates
chr7:28321844-28322385:-
Coord C1 exon
chr7:28322263-28322385
Coord A exon
chr7:28321961-28322262
Coord C2 exon
chr7:28321844-28321960
Length
302 bp
Sequences
Splice sites
5' ss Seq
TCGGTAAGA
5' ss Score
10.53
3' ss Seq
ATTGTGGTTTTCACACTCAGAGG
3' ss Score
5.46
Exon sequences
Seq C1 exon
ACATAAACGAATGCAGCTTCAACAATGGAGGATGTGAGCACACCTGCGAGAACACCATGGGAAGCTTTGGGTGCCACTGCCGGACTGGTTATAAGCTGCACTGGAACAAGAAAGACTGTATCG
Seq A exon
GTAAGATGAGCCTGAGTGACTCTGAATGCTGCCGATGTCGGCTTAGATGAAAATCAGTTTTTCATCCTGGGGAGTGAAAAGCAGGAGATACTTTTGAGTTTCTCAATCTGGCTCTTTTTGTCTTCGCTACTGCTAAACAAACAGAAACCAAATGCTGTCTAACTCGCATCTCAACGTTCGTCTTCTCATCTTGAATGTACTGTTCATTGATGAGCTTTTTTTCTGGAACTATTTCCGTCTAAGCTTCCTCTCAGCATGTGTATGGTGTCTTTATTGTTAAGCATTGTGGTTTTCACACTCAG
Seq C2 exon
AGGCAGAGGACTCTCCACTAGTGCCACCTCCTGCCAGGCCCACTCTCAACTGCAATAAGCAGGGAGGAGGCGAGCTCTGCTACCTAACCTGCCAGTCACAGGTCCACATCAGCAGCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000037362:ENSDART00000054366:11
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:
PF146701=FXa_inhibition=WD(100=85.7)
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:
ACATAAACGAATGCAGCTTCAACA
R:
CTGCTGATGTGGACCTGTGAC
Band lengths:
238-540
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]