GgaINT0136535 @ galGal4
Intron Retention
Gene
ENSGALG00000002602 | CSMD2
Description
CUB and Sushi multiple domains 2 [Source:HGNC Symbol;Acc:HGNC:19290]
Coordinates
chr23:4772086-4772763:+
Coord C1 exon
chr23:4772086-4772259
Coord A exon
chr23:4772260-4772589
Coord C2 exon
chr23:4772590-4772763
Length
330 bp
Sequences
Splice sites
5' ss Seq
TGGGTATGT
5' ss Score
7.43
3' ss Seq
CCCTGTGTCCCCCCCTGCAGCCG
3' ss Score
11.42
Exon sequences
Seq C1 exon
TTATCTCCTGTGGAGACCTGCCCACGCCTCCCAATGGGAACAAGATCGGCACGCTGACCAGCTATGGGGCCACTGCCATCTTCTCCTGCAACACCGGCTACACCCTGGTGGGCTCCCGCGTGCGCGAGTGCATGGCCAACGGGCTGTGGAGCGGGGCTGACGTGAGGTGTCTGG
Seq A exon
GTATGTGGTGGTGCTGAGGGGGCCCTCATTGCGTGTCAGGAGGGAGCAGGGGTGTAAATACTGATCTGAGAAAGAACCCGAGTGAGGACTCAGCGCTACCGAACGTAGCACTGGGGTTGTCGGTAGATGTGAGAAGGAAGAGGGCTTTGATTCCGTACTGCCTAGCAGATGTGAGATGTTTTGAGATCGGAGAGGAGAGCTTTAAAAACGATCCGTTGTTTTTTGCTGCCGCTCCGGTTTGATTTATGACTGCAGATCCACCCAGGCAGGTCGGCGTGCGCTGGCTCTGGGCTGGAGCTCTGACTGCCTCCCCTGTGTCCCCCCCTGCAG
Seq C2 exon
CCGGGCACTGCGGCGTTCCCAGCCCCATCGTCAACGGGCAGATCAACGGCGAGAACTACAACTACCGCGGCAGTGTGGTCTATCAGTGCCAGCCCGGCTTCCGCCTGATCGGGATGTCCGTGCGCATCTGCCAGCAGGACCACCGCTGGTCCGGGAAGACGCCTGTCTGTGTGC
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002602:ENSGALT00000004092:52
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=WD(100=91.5)
A:
NA
C2:
PF0008415=Sushi=WD(100=91.5)
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:
CCTGTGGAGACCTGCCCA
R:
GACAGGCGTCTTCCCGGA
Band lengths:
335-665
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]