DreINT0132118 @ danRer10
Intron Retention
Gene
ENSDARG00000099554 | sec16b
Description
SEC16 homolog B (S. cerevisiae) [Source:ZFIN;Acc:ZDB-GENE-050208-274]
Coordinates
chr6:23804055-23804430:-
Coord C1 exon
chr6:23804293-23804430
Coord A exon
chr6:23804169-23804292
Coord C2 exon
chr6:23804055-23804168
Length
124 bp
Sequences
Splice sites
5' ss Seq
AAAGTAACG
5' ss Score
2.88
3' ss Seq
TGTTTTGTTTGCTACAACAGTTG
3' ss Score
4.96
Exon sequences
Seq C1 exon
GTGTATAAATTCCTGTATGCATGCCGGCTGCTGGACTGTGGGCTCGTTTCTCAGGCCTTCCACTACTGTGAAGTGGTGGGGAAAGCTCTGCTTAGAATAGACCAACCCCATGTGGTGCTATTGGGAGAGCTTATAAAA
Seq A exon
GTAACGCCCCTCTGTGCATGCTACACTGACACTGATCCTGCAGTTTTGTTCTGTTTGTGCATGCATTGCTCATGTAATGCCACTTCCAGCATGTTCAGTCTGTCTGTTTTGTTTGCTACAACAG
Seq C2 exon
TTGGTGGATAGACTGAAGTTCTCCGAAGCACAGCTCAATGACACGTGTGACGGTCAGCTTTTCCTGGACCCCGATTGGTTGGTGCAGATCCGCTGCAAACACCAGACCCTGCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000099554:ENSDART00000160547:16
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF129312=Sec16_C=FE(18.0=100)
A:
NA
C2:
PF129312=Sec16_C=PD(7.6=50.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AATTCCTGTATGCATGCCGGC
R:
CAGGGTCTGGTGTTTGCAGC
Band lengths:
242-366
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]