GgaINT0049536 @ galGal4
Intron Retention
Gene
ENSGALG00000014270 | SCRN3
Description
secernin 3 [Source:RefSeq peptide;Acc:NP_001244270]
Coordinates
chr7:16411768-16412287:-
Coord C1 exon
chr7:16412123-16412287
Coord A exon
chr7:16411950-16412122
Coord C2 exon
chr7:16411768-16411949
Length
173 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGC
5' ss Score
8.7
3' ss Seq
TTTGCCGCGGCTCGTTGCAGTGC
3' ss Score
4.9
Exon sequences
Seq C1 exon
NCCGCCCGCCCGCCGCCCCGCTCCTGCGACACCTTTGTGGCGCTGCCGCCCGCCGCCGCCGGGGGCCGGGTGGTGTTCGGGAAGAACTCGGACCGGCCGTCGGACGAGGTGCAGGAGGTGCTGTACGTCCCGGCCGCCGCGCACCCGGCCGGCGCCCAGCTGGAG
Seq A exon
GTGAGCCGCGGCGGGGGCCGCCCGGACGGGGCGCGCTCACGGAAGCGCCCCCGGGGGATCGTCCCTCGGAGCGGCCCCGGCGGCGAGTCGGGGTGCGCGGGGTGGCGGTGAGGGAGGGATGCCCTCGGGAACGGCGGCGTTAAAGGCGACGTCTTTGCCGCGGCTCGTTGCAG
Seq C2 exon
TGCACCTACATCACGGTCGAGCAAGCGGAGCAAACCTACGCCGTGGTCCTGAGCCGCCCGTCGTGGCTGTGGGGCGCAGAGATGGGCGCCAACGAGCACGGGGTGTGCGTCGGGAACGAGGCCGTGTGGGGCCGCGAGGAGGTGTGCGATGCCGAGGCGCTCCTGGGCATGGATCTCGTAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000014270:ENSGALT00000023082:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.145 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0357710=Peptidase_C69=PU(16.4=85.5)
A:
NA
C2:
PF0357710=Peptidase_C69=FE(20.9=100)
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:
GGACGAGGTGCAGGAGGT
R:
TACGAGATCCATGCCCAGGAG
Band lengths:
244-417
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]