DreINT0052600 @ danRer10
Intron Retention
Gene
ENSDARG00000001559 | csmd2
Description
CUB and Sushi multiple domains 2 [Source:ZFIN;Acc:ZDB-GENE-030616-39]
Coordinates
chr19:36763658-36764087:-
Coord C1 exon
chr19:36763918-36764087
Coord A exon
chr19:36763815-36763917
Coord C2 exon
chr19:36763658-36763814
Length
103 bp
Sequences
Splice sites
5' ss Seq
AAGGTGTTT
5' ss Score
2.06
3' ss Seq
GTCTGTTTGATGCGTTTCAGGTA
3' ss Score
8.99
Exon sequences
Seq C1 exon
CTGAATGTGGATCATCTGTAACTGGAAAACAAGGTGTTTTACTCTCTCCTAATTACCCTGGTTACTATGGTAATGACCATGAGTGCATCTACTCCATTCAAACTCAACCTGGTAAAGGGATCCAGCTCAGAGCTCGTGATTTCCACCTGGAGGAAGACGACATGCTTAAG
Seq A exon
GTGTTTATCACTTAGTTTTTTATTTTTTATTTTTTTTTGCTTCTGTGTGACATTTGTCAGTAAATTATGCAGTGTCAGTATGTGTCTGTTTGATGCGTTTCAG
Seq C2 exon
GTATATGATGGCAACAGCAACAGTGCCCGACTGCTGGGCACCTTCACGGGCACAGAGCTGATGGATGTCACTCTGAACAGCACGTCCAGCTCCATGTGGCTTGAGTTCATTAGCAACAGTGAGAACACCAGCAAAGGGTTTGAGCTGCACTTCACCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000001559:ENSDART00000132471:22
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.018 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0043115=CUB=PU(50.9=94.7)
A:
NA
C2:
PF0043115=CUB=PD(47.2=94.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGACCATGAGTGCATCTACTCCA
R:
GTGAAGTGCAGCTCAAACCCT
Band lengths:
252-355
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]