GgaINT0126239 @ galGal3
Intron Retention
Gene
ENSGALG00000002364 | SEC16A
Description
NA
Coordinates
chr17:8552552-8552946:+
Coord C1 exon
chr17:8552552-8552663
Coord A exon
chr17:8552664-8552840
Coord C2 exon
chr17:8552841-8552946
Length
177 bp
Sequences
Splice sites
5' ss Seq
CAGGTTTGG
5' ss Score
5.63
3' ss Seq
CTTCTCCCATTCCTCAATAGCTT
3' ss Score
8.19
Exon sequences
Seq C1 exon
CTTCTAAAGGCCTGCTGGATGCTGCTCACTTCTGTTACCTTATGGCTCAAGTTGGTTTTGGAGTTTACACGAGGAAGACGACAAAGCTTGTCCTGATTGGATCAAATCACAG
Seq A exon
GTTTGGATTTCCCTTTATAAAACATCACTGCTTTGATGCAAAACAGAAAGGTTAATGGCTAGAGAGAGGTGCACTGTGCCCCTCATCATCACCAGCAACTGCTGGCTTTGAGAACTGTCTGATAATGTTTATATTCTTAAAGTCAGGTAATATTTTTCTTCTCCCATTCCTCAATAG
Seq C2 exon
CTTGCCATTTTTAAAGTTTGCCACCAATGAAGCTATTCAAAGAACGGAAGCCTACGAATATGCACAGTCACTAGGAACTCAGCCTGGCTGCTTGCCCAATTTCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002364:ENSGALT00000003726:17
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:
PF129312=Sec16_C=FE(13.7=100)
A:
NA
C2:
PF129312=Sec16_C=FE(13.0=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:
CTTCTAAAGGCCTGCTGGATGC
R:
CTGGAAATTGGGCAAGCAGC
Band lengths:
218-395
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]