DreINT0132128 @ danRer10
Intron Retention
Gene
ENSDARG00000099554 | sec16b
Description
SEC16 homolog B (S. cerevisiae) [Source:ZFIN;Acc:ZDB-GENE-050208-274]
Coordinates
chr6:23827959-23828240:-
Coord C1 exon
chr6:23828140-23828240
Coord A exon
chr6:23828062-23828139
Coord C2 exon
chr6:23827959-23828061
Length
78 bp
Sequences
Splice sites
5' ss Seq
CAGGTACAT
5' ss Score
7.79
3' ss Seq
GTCTCATTTTGGTTTTATAGATG
3' ss Score
8.59
Exon sequences
Seq C1 exon
GCAGGAATATGACTACTCCACTTCCAGCTACTGGCCCTACAGGGAAGACTATGGCTATTATGATTATCACGGTTATCACAGAACACAATACAGCTCTCCAG
Seq A exon
GTACATGATATTCAGTCTGAGCCTGCAGTTTTTAATTATCACAAAAACTCAATCTCAAGTCTCATTTTGGTTTTATAG
Seq C2 exon
ATGGCGGCGGCTGGAGCCAGACAGATGGCTGGAGGACAGAGGGTCATCAGGGCCGAGGACTGACGCAGGAGTCTGCAAGAGCTTCATACTCCGATCAGCAGGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000099554:ENSDART00000160547:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.314 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:
CCAGCTACTGGCCCTACAGG
R:
CCTGCTGATCGGAGTATGAAGC
Band lengths:
180-258
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]