GgaINT0141268 @ galGal4
Intron Retention
Gene
ENSGALG00000002675 | SCUBE3
Description
signal peptide, CUB domain, EGF-like 3 [Source:HGNC Symbol;Acc:HGNC:13655]
Coordinates
chr26:4084459-4085436:-
Coord C1 exon
chr26:4085314-4085436
Coord A exon
chr26:4084576-4085313
Coord C2 exon
chr26:4084459-4084575
Length
738 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGG
5' ss Score
9.16
3' ss Seq
TCGCTTTTTCACCCCCCCAGATA
3' ss Score
9.68
Exon sequences
Seq C1 exon
ACATCGACGAGTGCCGGCTCAACAACGGCGGCTGCGACCACATCTGCAGGAACACGGTGGGCAGCTTCGAGTGCAGCTGCAAGAAGGGCTACAAACTGCTCATCAACGAGAGGAACTGCCAAG
Seq A exon
GTGAGGGCAGCGCGGGGACGCGGTCGTCACCTCTCACTGCCCTCTGCCCCCACCTCTCCTGCAGCGGCTGCTTCTCCGGGCTGAGCGCCCTGAGCTCAGCACCCACCCAGGCACTGCTGGGCCGTTTGGGGGGCACGGGAATCCCCCCAGAGCCACGGGCAGCACTCAGCCTCAGCTGCAGCCTCCCCTGAATCGCGGGGTCTGGGTGCGATGGGATGGGGGGGGGGGGGTTGGTGCTCCAGGGCTGCGACTGCTTTCATCTCCATCCAGGTTCTACGCTCTTACAAGCTTGACGTGAGCGTGGCAATTAACTTAATGAAGCCAACGAAATGATGATCAAACCCTCTGGGCCGGGCTCACCTGCGCACGCGGGGCTGCCCAGCCCCAGCCAGGTGCCCTGCAGGGCTGCACAGACGGTGCTGGCACCGACCCCAGGGCAGGACCTGCCCGTGCAGCACACCCTGTGCACCGGGCAGCACCGGGGCACCGCACCAAGGGCACCGTTTGGCACATCTGGGGGCTGCGCTTGGGGTGGGAGAGGTGGTGGTGGTGAGGGGGGTGGGCTACTCTGGCTGCAAATGGAACAAGCAAGGAGTTTGGAGCAGAGAAGGTGGGACACTGCCCTAGAGCATCCCAGTGTGGCGTCCCAGAGTATCCTGGTGCAGCACCCAGCTTGCACCACAAGAAGGAGAAGCGTGCCAACCCTCACCTCCTCACCTCGCTTTTTCACCCCCCCAG
Seq C2 exon
ATATCGACGAGTGCTCCTTTGACCGGACCTGCGACCACCTCTGCATCAACACCCCTGGCAGTTTCCAGTGCCTCTGCAACAAGGGCTACACGCTCTATGGGCTCACCCACTGTGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002675:ENSGALT00000004215:9
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),PF0764510=EGF_CA=PU(0.1=0.0)
A:
NA
C2:
PF0764510=EGF_CA=WD(100=95.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACATCGACGAGTGCCGGC
R:
GGTGAGCCCATAGAGCGTGTA
Band lengths:
230-968
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]