GgaINT0136515 @ galGal4
Intron Retention
Gene
ENSGALG00000002602 | CSMD2
Description
CUB and Sushi multiple domains 2 [Source:HGNC Symbol;Acc:HGNC:19290]
Coordinates
chr23:4738057-4738443:+
Coord C1 exon
chr23:4738057-4738170
Coord A exon
chr23:4738171-4738347
Coord C2 exon
chr23:4738348-4738443
Length
177 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGGG
5' ss Score
9.46
3' ss Seq
TATTCTTTCTCCTCATCCAGGTG
3' ss Score
10.82
Exon sequences
Seq C1 exon
TGGTCTTCGGGCAGTTTGCCTTCTTCCAGACTGCGCTCAACGACATCATCGAGGTTCACGATGGCCCCAACGAGCACTCCCGGCTGCTCAGCTCCCTCTCAGGCTCTCATACAG
Seq A exon
GTAGGGACCTGCCTCTGTTCCCATGGAAAAAAGTAAGCTAAAAGACAGTCTGATATTTAATGCTTTGCTCTGTGCAAAGCAGTATTGTGTGCAAGCTCTAGAGAAGCTTCGGTAAGCCACTGATAGAGCTGATGCTGTAATCTGTCTTCTCTGTTTTTATTCTTTCTCCTCATCCAG
Seq C2 exon
GTGAATCATTGCCATTAGCTACCACCAACCAGATTCTCATCAAATTTAGTTCCAAGGGTCAGTCTACAGCCAAAGGCTTTCATTTTGTCTACCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002602:ENSGALT00000004092:32
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.108 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0043115=CUB=FE(35.8=100)
A:
NA
C2:
PF0043115=CUB=PD(28.3=90.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGGTCTTCGGGCAGTTTGC
R:
CTTGGTAGACAAAATGAAAGCCT
Band lengths:
210-387
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]