GgaINT0145741 @ galGal3
Intron Retention
Gene
ENSGALG00000002672 | SBNO2
Description
NA
Coordinates
chr28:2409936-2410481:-
Coord C1 exon
chr28:2410387-2410481
Coord A exon
chr28:2410029-2410386
Coord C2 exon
chr28:2409936-2410028
Length
358 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGC
5' ss Score
10.22
3' ss Seq
CTGTGTTTGTCCTCATTTAGATC
3' ss Score
9.71
Exon sequences
Seq C1 exon
ATTTAGCTCCAGGAATTGATGAGATCTACGAGGAAAGCAAGGAGGTCTTCCTGACCCCTGGGCACCCACAGGATGGGCAGGTTGTATTTTATAAG
Seq A exon
GTAAGCAGCCTGCAATGCTATCTTGGCAGTCCAGTCTTCTCTGTTGATTCCCATGCTGGAGCTGTGAACTGCTGGATCCCTCCCCCTGCCCCATAACTGTTTGTCATGCTTGTGTCACGTTCGCTGTGGTCCTGAGCAGGTCACTGATGCTGGGAATCACACAGAGGAGGCAAGGAGAGGCCCTGTGCTGCCTAAGGGCTCTCTGAGCTGTAATGCCCCAGAGCATAGCCTGGCAGAGCCTGTTTCCAGGCTGCAGCAGCACCAAGTTTGTGCTGAGAAGGGCGTGTTTTGTGAGACAGACACTGATGCTTTTGTCCCATGCTCTGAAGTTACAGAATCTGTGTTTGTCCTCATTTAG
Seq C2 exon
ATCAGCGTTGACAGAGGACTGAAGTGGGAGGAAGCTTATGAGAAGTCACTGAAACTGACAGGATCCTATGATGGGTTCTACCTCTCCTACAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002672:ENSGALT00000004211:26
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=PD(0.1=0.0)
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:
AGCTCCAGGAATTGATGAGATCT
R:
TGTAGGAGAGGTAGAACCCATCA
Band lengths:
182-540
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]