GgaINT0136505 @ galGal4
Intron Retention
Gene
ENSGALG00000002602 | CSMD2
Description
CUB and Sushi multiple domains 2 [Source:HGNC Symbol;Acc:HGNC:19290]
Coordinates
chr23:4715279-4716112:+
Coord C1 exon
chr23:4715279-4715448
Coord A exon
chr23:4715449-4715955
Coord C2 exon
chr23:4715956-4716112
Length
507 bp
Sequences
Splice sites
5' ss Seq
AAGGTAACT
5' ss Score
9.01
3' ss Seq
GTGTTTCTCCTTCCTCCCAGGTG
3' ss Score
12.05
Exon sequences
Seq C1 exon
CTGAATGTGGTTCGTCTGTAACTGGAACTCAGGGTGTTCTGCTGTCCCCCAACTACCCAATAAACTACAACAACAACCACGAGTGCATCTACTCCATCCAGACACAGCCAGGGAAGGGGATCCAGCTGAAAGCCAGGACTTTTGAACTGGAAGCAGGAGATGTCCTCAAG
Seq A exon
GTAACTCTTTGTCTCAAGCAACGAAGGGCAGTGATGCTAAGGAGAGCGAGATCTGAAAGGAATTTGATGTTCTTGGGGGTTTTAGCATTATTTGTGTGTTTCTAGGAACCAAGGCTGATTCCTCTGCAAAGGGCTTAATTCAAATTCCAGCTGCTCAGCATCCCCATACTCGGATTAATCTGCATGTATGAGATTCAGGACTCTGTATGGAAGGAGACAAATCTAGGCTGAGTTTCTGTTAACCGCAGAGAAATGGTTTTGTAGGAGGTATTCCTATCACAGGATGTGTTCTGCTGTGCTGAACGCTCCCCTGAACTCCCCTGTTGAAGTGCACTGAGATGGGTGTGAGCCACGCGTGGTCGGCTCACAGAATCACAACCACGCCAGGCACGTCTGCCAGCATTTCTTTGCCTTCAAGTGAGCCGTCCCTGCTTGCACCCACGGGGGGTTTGACCCCTAAATGGCAATAAGAGGTCCTTTCCAGGATGTGTTTCTCCTTCCTCCCAG
Seq C2 exon
GTGTATGATGGCAGCAACAGCTCTGCTCGCCTGCTGGGTTCCTTCAGCCGCTCGGAAATGCTCAGCACCAGCATCAACAGCACTTCCAGCAGCATGTGGCTCGAGTTCATCACCAACAGCGAGAACACCAGCAAAGGCTTTGAGCTGCAGTTCTCTA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002602:ENSGALT00000004092:22
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:
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
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGAATGTGGTTCGTCTGTAACTG
R:
AGAGAACTGCAGCTCAAAGCC
Band lengths:
326-833
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]