GgaINT0136528 @ galGal4
Intron Retention
Gene
ENSGALG00000002602 | CSMD2
Description
CUB and Sushi multiple domains 2 [Source:HGNC Symbol;Acc:HGNC:19290]
Coordinates
chr23:4761644-4762201:+
Coord C1 exon
chr23:4761644-4761724
Coord A exon
chr23:4761725-4762087
Coord C2 exon
chr23:4762088-4762201
Length
363 bp
Sequences
Splice sites
5' ss Seq
TAGGTAGGC
5' ss Score
7.72
3' ss Seq
TTTTCTCTTTCTTTCTGCAGGAG
3' ss Score
12.73
Exon sequences
Seq C1 exon
CCTACCAGCTCTTCAGGTGTCAGCCTCCGACCATGGTTCCCAACGCAGAAATCATCACTGAGAATGAGGAGTTTAACATAG
Seq A exon
GTAGGCTCATGGTCCCTGAGCCCTCCTTCCCTTGCTGTCCTCAGCTGCTGGCAGTTTCCACAAGAGGACACGACGTGTTGTCCATCCCGAATCCCAGGCTCCAGGAGACCCCTTTGCACGTGTAGCTGTGTGACACTGCCTGATGTGTGACCCTGCTCAACAGCCACTATACAGAATTCCCGACACTTCATAGAATCATAGAATTGCTCAGGTTGGAGAAGACCTTCAAGATCAAGTCCAACCTCAACCTAACCATACTACCCTAACTCTAACAACTCACCATTAAATCATGTTCCTGGCCCTCTTCTCAGGGCACAATTCATCCTTCTCCTCGATCAGGATATTTTCTCTTTCTTTCTGCAG
Seq C2 exon
GAGACATTGTGAGGTACAGATGCCTTCCTGGCTTTACACTGATTGGAAATGAAATCCTGACCTGCAAACTAGGCACTCACCTGCAGTTTGAAGGCCCTCCGCCCACCTGTGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002602:ENSGALT00000004092:45
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:
PF0008415=Sushi=PU(36.2=75.0)
A:
NA
C2:
PF0008415=Sushi=PD(62.1=92.3)
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:
CAGCTCTTCAGGTGTCAGCCT
R:
CTTCACAGGTGGGCGGAGG
Band lengths:
190-553
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]