DreINT0131791 @ danRer10
Intron Retention
Gene
ENSDARG00000011490 | scube3
Description
signal peptide, CUB domain, EGF-like 3 [Source:ZFIN;Acc:ZDB-GENE-060717-1]
Coordinates
chr23:41449571-41449892:-
Coord C1 exon
chr23:41449776-41449892
Coord A exon
chr23:41449667-41449775
Coord C2 exon
chr23:41449571-41449666
Length
109 bp
Sequences
Splice sites
5' ss Seq
CAGGTATCA
5' ss Score
7.33
3' ss Seq
GTTGATGGTGTGTTACCCAGAAT
3' ss Score
3.17
Exon sequences
Seq C1 exon
AGCTCATAAAATGTGCCTCCAATTTGGTGGCCCCCAAAGCCACCCTGGCCTGCAGTAAAACGGGCAAGAAAGAGAGCTGTTCCCTCACGTGTGCATCCAAAGCACATTATCTGTCAG
Seq A exon
GTATCAGCAAAGTACTTAAGCATGACTTTCAATCGTGACTACAGCAGAAGCACACATAGCGGTCTTGTTCATTTGTATCCAATGCACTTGTTGATGGTGTGTTACCCAG
Seq C2 exon
AATCAGACAGCAGTTATTCTGTCAGCTGTGGAATATCAATCCTGCGAGGAAAATCTCAGAGCAGAGTCAACACGAGCAGCATCCAGAGCTGCATAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000011490:ENSDART00000102879:7
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:
NO
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:
GCTCATAAAATGTGCCTCCAAT
R:
CTCTGGATGCTGCTCGTGTTG
Band lengths:
204-313
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]