DreINT0132129 @ danRer10
Intron Retention
Gene
ENSDARG00000099554 | sec16b
Description
SEC16 homolog B (S. cerevisiae) [Source:ZFIN;Acc:ZDB-GENE-050208-274]
Coordinates
chr6:23827779-23828061:-
Coord C1 exon
chr6:23827959-23828061
Coord A exon
chr6:23827867-23827958
Coord C2 exon
chr6:23827779-23827866
Length
92 bp
Sequences
Splice sites
5' ss Seq
GGGGTCTGT
5' ss Score
0.78
3' ss Seq
TCCTTGCCTTTCTTTAACAGCTA
3' ss Score
10.25
Exon sequences
Seq C1 exon
ATGGCGGCGGCTGGAGCCAGACAGATGGCTGGAGGACAGAGGGTCATCAGGGCCGAGGACTGACGCAGGAGTCTGCAAGAGCTTCATACTCCGATCAGCAGGG
Seq A exon
GTCTGTCAATGACTTGTTCTCATACGCTAATACTGTCAATCTAATGATTTACTGTTTATTTTAAATTAAGGGTCCTTGCCTTTCTTTAACAG
Seq C2 exon
CTATAGCTTTAAAACAGACAGTCAGCATGACCATGGTGTATCAGAGAGACACAGAGAAAGCATGGACAACGGAAATAGAACTGGAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000099554:ENSDART00000160547:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=1.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Human
(hg19)
No conservation detected
Mouse
(mm10)
No conservation detected
Mouse
(mm9)
No conservation detected
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCTGGAGCCAGACAGATGG
R:
TCCGTTGTCCATGCTTTCTCTG
Band lengths:
167-259
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]