GgaINT0141264 @ galGal3
Intron Retention
Gene
ENSGALG00000002675 | SCUBE3
Description
NA
Coordinates
chr26:3982959-3984652:-
Coord C1 exon
chr26:3984518-3984652
Coord A exon
chr26:3983085-3984517
Coord C2 exon
chr26:3982959-3983084
Length
1433 bp
Sequences
Splice sites
5' ss Seq
AAGGTCAGT
5' ss Score
8.68
3' ss Seq
TGCTTCCTTCTCTCCTTTAGAAG
3' ss Score
9.32
Exon sequences
Seq C1 exon
ACCTGGACGAGTGCTCAGAGGGCAACGGCGGCTGCCAGCAGACCTGTGTCAACATGATGGGCAGCTATGAGTGCTTCTGCCGGGAAGGCTTCTTCCTCAGTGACAACCAGCACACGTGCATCCAGCGCCCCGAAG
Seq A exon
GTCAGTGCTTGGCACCCCCTGACTCCTTACTGCCCCCCTCCAAGGAAGGACCCCACTTTGGGGCTGTAGGGTAACCCCAGATGCGTCGCTCAGGTCCGGCTGCAAGGAGCAGTGTCACTTTTTGCTGTGGCAGTGACCGTGGGGTGGTTGATGGCTCCCGTGCTCAGCCCTGCACCGTGCACAGCTCTGGTGCTGCTTCCTGACCCCCCTCGGCGCTGGGAGCGCTGCGAATTTAAAAGCAAACTTGGCACGAGCACAGTGCGGGAGGACACTGCAGGGCTAATAAACATCCCAGAGCAAAACCCTTGCAGGCCCCTTAATCAAGCTCAATAATACCAAACGGAGGACACTAATCCCACGGCCAGAGCCTTTTATTAAACAAAAGGTACCCGGAGCTCCCCGCGCTGCTCTGCGAGACGCATCCTTTCCTGCCAGGTCTTGCGCAGCACCGATCCTTCTGTCTCAATATCAGCTCTAAATTGCTGCCGTCTGGAGCGACCTCTTCGCCAAAATATGAGGAAATGAGAGAGAGGGTTTTTTTTGTTGTTGTTGTTTTTCTTTTTTTGCATCTCTGCTGATTTTTATCTCTGCCGCTTGGCAAAGCGGCTGCATGGGTTTCGCTTTCCTCCTTCCCAGCTGTGCCGATCCCTTGTGCTCCCCGGCGTATCTCACCCAGGCTGGGATGGCTCAGTGGCATTTCTGCGTCCCCATCCCATGTGTGTGCCTGGCAGGGTTGAGGTCGCCGCCGCCGTGGGTGGCCCCGCTGCAGGCAGGGACACAGGTGCTGCCTTTTGGAGCCCATTTTTGAGCTGAGCATCTGCAGAGCATCATCAGCACAGGGAGGGCCGTGTGGGTTCTGCATCCCAAGGTCAGCTTTGTGGATGCTGCCTGCATGCTCCCTTCACTCAGGTTTTGGAGTGAAGAGAAGGGGTGAGAGGGTGGGAGCTGATCCCTGGGTTGTGAGCCCAGAACCTGGGAGTGCTTTGGGACTGGGTGTTGCTCACTCTGACTTTACTCCTGGCTCGGGCACTGCCAGGGCGAAGCATTCAGCGTTAGAGAGCTAAGTCTCACTTGTAGGGCTGCTTCCTTCCTTCTGGGGTCTTTGCCAGCACTGCGTCTCCCTTCTCCTTCCCTCTCTCCTTTCCCTCTGCCCTTTCTTTTGTGCTCTCTCCTTTCCCTTCTCTCCCTCCTTGTTGTGAGCAGATGCAGAGTGGTGAAACGCTGCCGGGCTGGGAGCCCCTGGCACAAAGAGCCGTCAGTTCTGATAAGATCCAAAAGGAAACCTTCCCTTTGTAGCAAAAACCAGCTGCCTCAAACCCCCATCCCTGCACTCCTGCCGTGCTGCTGGGCACAGAGGGCAGAGGGGAGCAGGAGAACAAACCTCAGTGCTGGTGGCCTTCTGGAGCTTTTCTTTGCTTCCTTCTCTCCTTTAG
Seq C2 exon
AAGGAATGAACTGCATGAACAAGAACCACGGCTGTGCCCACATCTGCCGAGAGACCCCCAAGGGGGGCATCGCCTGCGAGTGCCGCCCGGGCTTTGAGCTCACCAAGAACCAACGCGACTGCAAAC
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002675:ENSGALT00000004215:4
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=78.3)
A:
NA
C2:
PF146701=FXa_inhibition=WD(100=86.0)
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:
ACCTGGACGAGTGCTCAGAG
R:
TTTGCAGTCGCGTTGGTTCTT
Band lengths:
260-1693
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]