GgaINT0126249 @ galGal3
Intron Retention
Gene
ENSGALG00000002364 | SEC16A
Description
NA
Coordinates
chr17:8557758-8558341:+
Coord C1 exon
chr17:8557758-8557869
Coord A exon
chr17:8557870-8558203
Coord C2 exon
chr17:8558204-8558341
Length
334 bp
Sequences
Splice sites
5' ss Seq
CAGGTAACA
5' ss Score
8.88
3' ss Seq
TCTGGATTTCTCTACTTTAGCAG
3' ss Score
5.45
Exon sequences
Seq C1 exon
AGTAAGCCTCCACCACCACCTCCTACAGGATTTCCTAAAGTTCCTCAGGCTGCTCCATCTGGGCCTGGAGGCCCACCTAGTGCCCCTGTCAACATGTTCTCTAGGAGAGCAG
Seq A exon
GTAACAGACAGTGTTACTGGTTGAAGTATGGAAGGCTTCAAACTTTGCATTGCATAAAATATGAAGACAAAACTCTTGTTCCCAAACACGCCCAGAAAAGATAGCTGGCAACTCGATGATGTCATGGAGCTCTGGCTCTTGCTGGCTTCTCTTGTGCCTAGCTTCTGCCTTGTAATTGCTGTCACAGTAACACTGTGGCTTGGATATTGTTTGTATCCCTGCAGTGTTATTTGCTGATTCTGAAAGACAGTTTAGCCATCAAGCAGTTGAAAATAGACACAGGAATGAATAACATAAGGCTTATTTCTGTTATTTCTGGATTTCTCTACTTTAG
Seq C2 exon
CAGGAAGCAGAGCTCGTTACGTTGATGTTCTGAATCCAGGTGGAACCAAGTCAAGTGGTGCTGTTCCTGCACCATCAGACCTATTTGCACCACTGGCACCAATGCCAATTCCTGCAAATGTATTTGTTCCAAATGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002364:ENSGALT00000003726:27
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.974 A=NA C2=0.936
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
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:
AGTAAGCCTCCACCACCACC
R:
CAAATACATTTGCAGGAATTGGCA
Band lengths:
238-572
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]