GgaINT0126232 @ galGal4
Intron Retention
Gene
ENSGALG00000002364 | SEC16A
Description
SEC16 homolog A, endoplasmic reticulum export factor [Source:HGNC Symbol;Acc:HGNC:29006]
Coordinates
chr17:7860785-7861178:+
Coord C1 exon
chr17:7860785-7860927
Coord A exon
chr17:7860928-7861116
Coord C2 exon
chr17:7861117-7861178
Length
189 bp
Sequences
Splice sites
5' ss Seq
GAGGTAACG
5' ss Score
9.65
3' ss Seq
TCTTCTGGTTTGTGTTTTAGACT
3' ss Score
10.31
Exon sequences
Seq C1 exon
TGCCCTTAAGGCCCTCAACGCCTGAGAAATTTTCAGTGCCTCACCTGTGTGCCAGGTTTGGTCCTGGGGGCTTCTTAATAAAAGTACTGCCAAACCTGCCTTCGGAAGGACAGCCAGCCCTGGTTGAAATACACAGCATGGAG
Seq A exon
GTAACGTTTAAAAGGAAAAAAGGATGATGAAATATTGGCCTCTGTTTTGGAAGGGGGATGGGGAGCTTTTGATCTGTAACTTCTTGTGGTTTTTTTAATGTCAGTGCATGTTATCTCTCTGTATTTATCTGTTGTGTTTGTGTAGCTGTAAGTGATAGCTTTTAACAAGTCTTCTGGTTTGTGTTTTAG
Seq C2 exon
ACTATGTTGCAGCATTCTCCAGAGCAAGAAGAGATGAGAGCTTTTCCTGGTCCTCTTGCTAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002364:ENSGALT00000003726:10
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.167 A=NA C2=0.905
Domain overlap (PFAM):
C1:
PF129322=Sec16=PU(33.0=70.8)
A:
NA
C2:
PF129322=Sec16=FE(19.4=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:
CCCTTAAGGCCCTCAACGC
R:
TAGCAAGAGGACCAGGAAAAGC
Band lengths:
202-391
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]