GgaINT0141280 @ galGal3
Intron Retention
Gene
ENSGALG00000002675 | SCUBE3
Description
NA
Coordinates
chr26:3969175-3969566:-
Coord C1 exon
chr26:3969414-3969566
Coord A exon
chr26:3969255-3969413
Coord C2 exon
chr26:3969175-3969254
Length
159 bp
Sequences
Splice sites
5' ss Seq
ATGGTAAGC
5' ss Score
9.26
3' ss Seq
CTCTCACTTGGCTGTTGCAGAGG
3' ss Score
7.07
Exon sequences
Seq C1 exon
CCTCCCCATCCTCCATCACCACCTATGAGACGTGCCAGACCTACGAGAGACCCATCGCCTTCACCGCCCGCTCTCGCAAACTCTGGATCAACTTCAAAACCAGCGAGGCCAACAGCGCCCGGGGCTTCCAGATCCCCTACGTCACCTATGATG
Seq A exon
GTAAGCACGGGGCGGCAGCATCCCGGCCTGGCGCTGCCTGCCCTGCTCCCCAGGAGCCCAGCTTACATCTCCCATGCACTGGGGAGCTCAGTGCCAGGGATTGGGACTCTGGGTTTGGGGAGGCCTGCCCTGAGCTGGTCTCTCACTTGGCTGTTGCAG
Seq C2 exon
AGGACTACGAGCAGCTGGTGGAGGACATCGTGCGGGACGGCAGGCTGTACGCCTCCGAAAACCACCAGGAGATCCTCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002675:ENSGALT00000004215:20
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.019 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0043115=CUB=PD(41.8=88.5)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTCCCCATCCTCCATCACCAC
R:
GGATCTCCTGGTGGTTTTCGG
Band lengths:
227-386
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]