GgaINT0141278 @ galGal3
Intron Retention
Gene
ENSGALG00000002675 | SCUBE3
Description
NA
Coordinates
chr26:3969975-3970864:-
Coord C1 exon
chr26:3970703-3970864
Coord A exon
chr26:3970173-3970702
Coord C2 exon
chr26:3969975-3970172
Length
530 bp
Sequences
Splice sites
5' ss Seq
AAAGTAGGT
5' ss Score
6.84
3' ss Seq
GTCCCTCTCCTGCCTTGCAGATC
3' ss Score
12.61
Exon sequences
Seq C1 exon
TCCAGTGCTCGCCCGGGCACTACTACAACACCAGCGTCCACCGCTGCATCCGCTGCGCCGTGGGCACATACCAGCCTGACTTCAGGCAGAACTACTGCATCGCCTGTCCCGGCAACACCACCACCGACTTCGACGGCTCCACCTCCGTGTCTCAGTGCAAAA
Seq A exon
GTAGGTGGGCAGTGGGTGTGATGTGGTGTCAGTGGGGTTCCTTCCCCAGAACCACCCCCAGGCCCCTCAAAGTAGCATATTCAGACATTGCTGCGCCTCGTGTGGGTGGGCGTGCGTGATAAGGAGCTCTGCCACACCACCCAGTAAAGCTCTGCAGTCACAGTGCCTTTGACACCAATTTCCCATCCCTCTGTGCCTCCTATTCCTTGCCCCTTATGCCACCAGTTTCCAGTCCCTCTGTGCCCCTTATGCCACCAGTTTCCAGTCCCTCTGTGCCCTTCATGCCACCAGTTTCTTCTCTCTGTGCCACCAATTTCCCTCTGTGCCACCAGTTTCCAGTCCCAGTGCCTATGCCACCAGTTTATCTGTGCCCTCTCTGCCACCAGCTTCCAGTCCCTCCATGCCCTCTGTGCCATCGGTTTCCATTCCCTCTGTGCCACCACTTTCTAGTCCTTGTCCTCTGTGCCACCACTTCCTTGTCCCTCTGTGCCACCAGTTTCCAATCCATCTGTCCCTCTCCTGCCTTGCAG
Seq C2 exon
ATCGCCAATGCGGAGGCGAGCTGGGCGAGTACACGGGTTACATTGAGTCCCCCAACTACCCGGGGAATTACCCCGCCAACGTCGAGTGCACGTGGAACATCAACCCACCGCCCAAGAGAAAGATCCTCATCGTGGTGCCAGAGATCTTCCTGCCCTCTGAGGATGAGTGCGGGGACGTCTTGGTGATGCGGAAAAACT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002675:ENSGALT00000004215:18
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.018 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF076998=GCC2_GCC3=WD(100=87.3)
A:
NA
C2:
PF0043115=CUB=PU(57.3=94.0)
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:
GGGCACTACTACAACACCAGC
R:
TTTTCCGCATCACCAAGACGT
Band lengths:
343-873
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]