GgaINT0126250 @ galGal4
Intron Retention
Gene
ENSGALG00000002364 | SEC16A
Description
SEC16 homolog A, endoplasmic reticulum export factor [Source:HGNC Symbol;Acc:HGNC:29006]
Coordinates
chr17:7869108-7869950:+
Coord C1 exon
chr17:7869108-7869245
Coord A exon
chr17:7869246-7869849
Coord C2 exon
chr17:7869850-7869950
Length
604 bp
Sequences
Splice sites
5' ss Seq
CAGGTATGT
5' ss Score
9.8
3' ss Seq
AAATCTTATTCGCTTTGTAGTTC
3' ss Score
5.5
Exon sequences
Seq C1 exon
CAGGAAGCAGAGCTCGTTACGTTGATGTTCTGAATCCAGGTGGAACCAAGTCAAGTGGTGCTGTTCCTGCACCATCAGACCTATTTGCACCACTGGCACCAATGCCAATTCCTGCAAATGTATTTGTTCCAAATGCAG
Seq A exon
GTATGTCTTGAGTGGATAAACTTGCAGTGAGGTTTTCTTCAAGTCACTTTTGCCAATATGTATTAAGTAGCCTCTGAAAATTTAAAAGATAAATTGGAGTTAGTGGGGTTGAACGTTTTTAAAGAAAGGTTGGTCTGGGATTGCAGTAAAACAAATTAGTGAGGCCTGTCTCTGTACTCTGCAAACAGAGGTGGTTTTTCATTTGCTTTGAGTTTATCAAAAGATACCCAAACAAAGTAGGGTTTTCTGTGCCTTTTTTAACTTTTTTAGAGCCATCATAATAGGAACATTTGAATTGTTTAGTGTTCCTATTTTGCTAAACATAGTGCTTTCATTACTTGTTTATGATCTCTTTTTCTTCTTTCACTGCATACTGTGTTGCACCAAGGCTATCTCTGTGAATTGTGTGCATCTCCTGCTTGCAGACTTGTAACAGAACTGAGGCATCTAAAAGTACTGATGCTACACTCTTTAAATTACCTCTTTTTTTCTGATAGACGATTGGTATTGTAGAAATTCAGTTCTGCTTATGACCCTGCTTCTCATTCTGTGAAGTCAAACACCCTGAGCTGGTGTGTTTAGTTAAATCTTATTCGCTTTGTAG
Seq C2 exon
TTCCAGGGGACCCTCAGCCCATGGAAGGAAGTGGTGCAGCAGAGCACACACCAGCTGCAAACCAAACCAACACAGATCCATCTGCAGCTGTTGATCAAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002364:ENSGALT00000003726:28
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.936 A=NA C2=1.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
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:
CAGGAAGCAGAGCTCGTTACG
R:
TCTTGATCAACAGCTGCAGATGG
Band lengths:
238-842
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]