GgaINT0145740 @ galGal4
Intron Retention
Gene
ENSGALG00000002672 | SBNO2
Description
strawberry notch homolog 2 (Drosophila) [Source:HGNC Symbol;Acc:HGNC:29158]
Coordinates
chr28:2863275-2863741:-
Coord C1 exon
chr28:2863598-2863741
Coord A exon
chr28:2863370-2863597
Coord C2 exon
chr28:2863275-2863369
Length
228 bp
Sequences
Splice sites
5' ss Seq
TAGGTAAGG
5' ss Score
9.31
3' ss Seq
GGTCTTTCTTTGTGCTACAGATT
3' ss Score
7.73
Exon sequences
Seq C1 exon
ACTGCTCCATCACCAAGTTCCTCAACCGGATCCTGGGCCTGGAGGTGGACAAGCAGAACATGCTGTTCCAGTATTTCTCTGATACTTTTGACTATCTGATTGAAAAGGACAAGAAGGAGGGCAAATATGACATGGGCATCCTAG
Seq A exon
GTAAGGAGGAAAGGGGCGATCAGACTTCTTATACTGCACCCCTGAGGTTCCCTGCTCCTCCCTGTGCTGACCACTGGCTATTCCTCTGTCCCCATCGCCTTCTCAGGTGCTGGAGGGTCCCAGCCCCACATAGCACAGATCCTGAGACTCCTGTGCAGGAAGAGGAGGTGGCACAGGGAGATGGATCTTATACCTGGGCATGTGTTTTGGTCTTTCTTTGTGCTACAG
Seq C2 exon
ATTTAGCTCCAGGAATTGATGAGATCTACGAGGAAAGCAAGGAGGTCTTCCTGACCCCTGGGCACCCACAGGATGGGCAGGTTGTATTTTATAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002672:ENSGALT00000004211:23
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms (No Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF138711=Helicase_C_4=FE(17.2=100)
A:
NA
C2:
PF138711=Helicase_C_4=PD(0.1=0.0)
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:
ACTGCTCCATCACCAAGTTCC
R:
ATAAAATACAACCTGCCCATCCTGT
Band lengths:
236-464
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]