GgaINT0126233 @ galGal3
Intron Retention
Gene
ENSGALG00000002364 | SEC16A
Description
NA
Coordinates
chr17:8550213-8550619:+
Coord C1 exon
chr17:8550213-8550274
Coord A exon
chr17:8550275-8550480
Coord C2 exon
chr17:8550481-8550619
Length
206 bp
Sequences
Splice sites
5' ss Seq
TAAGTATGT
5' ss Score
4.58
3' ss Seq
CTGTCTCATTTTTCTTTCAGAGA
3' ss Score
10.9
Exon sequences
Seq C1 exon
ACTATGTTGCAGCATTCTCCAGAGCAAGAAGAGATGAGAGCTTTTCCTGGTCCTCTTGCTAA
Seq A exon
GTATGTCCTCATAGATTTCAAAAAACTCTCTCACTTTTTAGATTCCATTTCCTCATCCAACCTTTTATTGTCCTATAATGGTAAACTATAGGGTTTAAATTAACTCAAAATTTGTTGTTTTTCACTTGTAAAAAATGTAAATTTGTTTCTCATGCTAATCTCAATAGTGATCTGAATGTTCTACTTCTGTCTCATTTTTCTTTCAG
Seq C2 exon
AGATGACACCCATAAAGTGGACGTTATTAACTTTGCACAAAATAAAGCTACACAATGTTTTAAAAATGAAAATTTAATTGACAAAGAATCTGCAAGTCTGCTTTGGGACTTCATTGTACTGCTGTGCAGGCAGAACGGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002364:ENSGALT00000003726:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.905 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF129322=Sec16=FE(19.4=100)
A:
NA
C2:
PF129322=Sec16=FE(44.7=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTTGCAGCATTCTCCAGAGCA
R:
CCCGTTCTGCCTGCACAG
Band lengths:
196-402
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]