GgaINT0035818 @ galGal3
Intron Retention
Gene
ENSGALG00000004424 | SEC16B
Description
NA
Coordinates
chr8:6931879-6932165:+
Coord C1 exon
chr8:6931879-6931960
Coord A exon
chr8:6931961-6932047
Coord C2 exon
chr8:6932048-6932165
Length
87 bp
Sequences
Splice sites
5' ss Seq
CAGGTCTGT
5' ss Score
6.84
3' ss Seq
TTCACTTCCCTCTCCTCCAGAGC
3' ss Score
11.26
Exon sequences
Seq C1 exon
GTTCACCAGCACTCTGGCCACCAACGACCCACTGCAGACCTTCTTCCAGCTCATGTCAGGAAGGATCCCGCAGGCAGCGCAG
Seq A exon
GTCTGTGAGCAGCAGGCTGGCCCCATTGCCCATCTCACCCACCTGATGATAGCCATCCCGCTTCACCTTCACTTCCCTCTCCTCCAG
Seq C2 exon
AGCTGCGGGGATGCCAAGTGGGGAGACTGGAGGCCCCACTTGGCTGTGCTGCTGTCCAACAAGGTGGGAGACATGGAGCTGAACCACCGGGCCATCGTCACCATGGGAGACACCTTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004424:ENSGALT00000007046:12
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF129312=Sec16_C=FE(11.2=100)
A:
NA
C2:
PF129312=Sec16_C=FE(16.2=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:
CACTGCAGACCTTCTTCCAGC
R:
CAAGGTGTCTCCCATGGTGAC
Band lengths:
170-257
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]