GgaINT0006923 @ galGal4
Intron Retention
Gene
ENSGALG00000003392 | SBNO1
Description
protein strawberry notch homolog 1 [Source:RefSeq peptide;Acc:NP_001026640]
Coordinates
chr15:5022242-5022559:+
Coord C1 exon
chr15:5022242-5022388
Coord A exon
chr15:5022389-5022464
Coord C2 exon
chr15:5022465-5022559
Length
76 bp
Sequences
Splice sites
5' ss Seq
TAGGTGAGT
5' ss Score
8.83
3' ss Seq
TCTGTTCTTTCCTCTTTAAGATT
3' ss Score
10.92
Exon sequences
Seq C1 exon
ATTATAACAACATAGGAAAATTTCTGAATAGAATTCTTGGTATGGAAGTACATCAGCAGAATGCTTTATTCCAGTACTTCTCTGATACATTAAATGCAGTTATTCAAAATGCAAAAAAGAATGGAAGATACGATATGGGCATCTTAG
Seq A exon
GTGAGTTACTCAATATCTCACTGTTCTTATGCTTAGGAAAAGAAAGGAGGAGTAACTCTGTTCTTTCCTCTTTAAG
Seq C2 exon
ATTTGGGCTCTGGGGATGAGAAAGTAAGGAAAGCAGATGTTAAGAAGTTTCTAACTCCTGGATATTCTACCTCGGGACATGTAGAACTATACACA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000003392:ENSGALT00000005363:25
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:
PF138711=Helicase_C_4=FE(17.7=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:
TGGAAGTACATCAGCAGAATGC
R:
CCCGAGGTAGAATATCCAGGAGT
Band lengths:
181-257
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]