GgaINT0145731 @ galGal4
Intron Retention
Gene
ENSGALG00000002672 | SBNO2
Description
strawberry notch homolog 2 (Drosophila) [Source:HGNC Symbol;Acc:HGNC:29158]
Coordinates
chr28:2867639-2868921:-
Coord C1 exon
chr28:2868839-2868921
Coord A exon
chr28:2867840-2868838
Coord C2 exon
chr28:2867639-2867839
Length
999 bp
Sequences
Splice sites
5' ss Seq
AACGTAAGA
5' ss Score
7.69
3' ss Seq
CTGCTCGCTCTCCCTTGCAGGCA
3' ss Score
11.88
Exon sequences
Seq C1 exon
AGGCGTCTTTCTATCACTAATTCAGAAGCACTTTCCTTCAACCAAAAGAAAGAGAGAAAAAGGAACTGGCATTAAAAGAAAAC
Seq A exon
GTAAGAGCACACTCCACTGCCCAGCATTTGACCTCCTGCCTTGCTGCTTCACCCCAGCCACTCAGCTTTTTCTTTTCCTTTTTCCCCTTTCCCTACTTCGTGCATTCGCTGCTCTGCCCTGGTTTCAGTTTGCCCTCCCGCACATCTCCTGTCACCGCCTCTCTCCTGGGGGACAGCAACCCTGTAGGTCACCACCCCCTCCTCCCCTAACCCACTCCCTGCCACCAGCGTAGGGCTGAGCCTCCACCACTTGCCCAGCAGCTGTTCCCCTTCCCATGGCTGCTTCCTTCCCTGGACTGGTGGGCAGGCAGCGCAGCAGTCCTGGCTGCACGTTTCCCTCTTGCAGCAAGGGGTGTCTCCACTGCCCCTTATACGTAGCATGGCAGGTGTCCTGGGGAAAAAAATGACTTCCGTGCCAATGTGTTGGCTGTGGCTGCAGGTAAGAGAGGTTTGGGAATTTCTCCTCCAGTGGGATGGGAGGAAGGGTGGACAGCAGCACAGGCAGATTGTGGAGGTTTTCCTGGCAGGTTGCTGTTGCACAGCAGCCTGTGCAAGCTGATTCTTGTGAACCCTCTCACATGGCAGGGGCATGTCTTGCTGTGCTTGGAAGTAAACAACGTCCCATCTGCAAACACCAAAACACTGTCACCTTCCCACTGCTTGCTCATTCCTCTGGAGGCAGCCAGACCTGCGGGCTCCTTCTGCTGAGGAGTCAGCACTGCTTATTGCCAGATGTGTGTTATCCTGACGTGTGCGATCAGCTGCAGCCCTGATACGAATTGCCTTGTTCTTCCTTTCTCTCTCTTCCTTTCTCTTTCTCTCTCCTTCCCCCTTTCTCCCTCCCTTCCTAGCTGTCCTGCCATGCTCAGGAGGCTTTCTCGCTCTGAGATCAGCCTTTCACTGGGGGCAGGCTCGGCTGTATTGTGATCTCTTCTCCTCTTTCTGAGCTGGCACTTGCTGTTTTTGCACAAGGCTGACCCTGCTCGCTCTCCCTTGCAG
Seq C2 exon
GCAAGCAGAGGGGCCGCTGCGCCAAGACTCTGAAGGGCATGTGTGACCCCGTGGGGGTGATCAAGATCAGCGATGACAGCAGCACCGACTCCGACATGGGGCTCGACAGTGACTTCAACTCCTCCCCAGAGTCTGTGCTTGAGAATGACGATGTCATCTTCATTGAGCACGCCTTCAATGGCTTTGTGACTGAGAGCAGAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002672:ENSGALT00000004211:14
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.414 A=NA C2=0.206
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
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:
AGGCGTCTTTCTATCACTAATTCAGA
R:
CTGCTCTCAGTCACAAAGCCA
Band lengths:
282-1281
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]