GgaINT0141270 @ galGal3
Intron Retention
Gene
ENSGALG00000002675 | SCUBE3
Description
NA
Coordinates
chr26:3972737-3973563:-
Coord C1 exon
chr26:3973441-3973563
Coord A exon
chr26:3972854-3973440
Coord C2 exon
chr26:3972737-3972853
Length
587 bp
Sequences
Splice sites
5' ss Seq
TAGGTATGT
5' ss Score
7.76
3' ss Seq
AGCCGGTGCATGTCCCTCAGAGC
3' ss Score
5.57
Exon sequences
Seq C1 exon
ATGTTGATGAATGCAGCATTAACCGCGGAGGCTGCAAATTTGGCTGCATCAACACACCTGGCAGCTACCAGTGTACCTGTCCTGCCGGCTGCAAGCTGCACTGGAACAAAAAGGACTGCATAG
Seq A exon
GTATGTCCAGTCCAGACCTGCTCCAGCACAGCCCGGGAGTGCCATGGTCCCAACCATCACCTGGGGCTGTAGGGAGCAAGGTGGGGGTGGGTGGAGCACTGGGATTTGGGGAGTTCAAGTGAAGGGTGCTGCAGGGTGAGCTGCTTTGGTCTGCGGACTCTTTGTCCACCTCACGTGGGTCAGGATGGGATGGGATGGAATGGATGTTGTCCCAGGGCAGGGGAAGCAGGACATCTCATTGCATCTTAGACCATGCCTAGGGCTGGCTGTGGGCTTTTGCACTGGTGATGCCCCTAAAGGAACAGTTTTCATGGCCCTGGCCATGCCCTGGTACCCAACTGACCCCTTTCACTGGGGAGAGATAGAGCCAAGGGCAGCTCTGCCCCCCAGATTCAGAAATCCCAGGAGTCACAGTGCAAGAAGGAGCTGGGGGCAGGGGGAGGGTTAAGATGCTGCTCTGGGAGTCCCACACCACACTGTCTTATCCCAGCTGGGTGGGTGGGGGGGGGGGTTCCCACCGTGGTCTCTGCTCTGTGCCAGCCATGGGTGTCCCCACTTGTCCCCACCAGCCGGTGCATGTCCCTCAG
Seq C2 exon
AGCTGGTGAAATGCCTGTCAGGTTCGGTGCCACCACGGGCCACTCTCACCTGCAACAAGACGGGCAAGAAGGACAGCTGCGCCCTCACCTGCGCCTCCAAGGCTCGTTTCCAGCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002675:ENSGALT00000004215:10
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)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATGTTGATGAATGCAGCATTAACCG
R:
GGCTGGAAACGAGCCTTGG
Band lengths:
238-825
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]