DreINT0132131 @ danRer10
Intron Retention
Gene
ENSDARG00000099554 | sec16b
Description
SEC16 homolog B (S. cerevisiae) [Source:ZFIN;Acc:ZDB-GENE-050208-274]
Coordinates
chr6:23823979-23824356:-
Coord C1 exon
chr6:23824236-23824356
Coord A exon
chr6:23824125-23824235
Coord C2 exon
chr6:23823979-23824124
Length
111 bp
Sequences
Splice sites
5' ss Seq
CAGGTTTGT
5' ss Score
7.44
3' ss Seq
TGGTTGGTCATCTTATTTAGGTG
3' ss Score
7.28
Exon sequences
Seq C1 exon
GTGTATGATAATAGTGCTCTTGCCAACTCTAAAGCATCGGGTCTGTCTTCAAGCAGCTATGAGCTCAGTCAGTATATGAATGGAGCTGAACAGAGTGAGCTTGAGCTCATTTCTCACACAG
Seq A exon
GTTTGTCAGAACCACAGTTCAGACACAGTACCTATCTAATCTTACTAACGCGTAACTATTTTTTGATTGGTCATTGGATTCAGAATTTCTGTGGTTGGTCATCTTATTTAG
Seq C2 exon
GTGTTGTGCCCGTTGAGGTCGCTCCACTCAAGTTCAGCATCCCTCATGTGGCAGTGAGTTTTGGGCCGGCAGGTCAGCTTGTGTGGGTCAGTCCAGCCCTGGCCTCTGAGGGTGAGCCTGCTCAAGTGGAACTCCACAGCCTGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000099554:ENSDART00000160547:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.341 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF129322=Sec16=PU(33.0=69.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTGCTCTTGCCAACTCTAAAGC
R:
GAGTTCCACTTGAGCAGGCTC
Band lengths:
242-353
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]