GgaINT0103001 @ galGal4
Intron Retention
Gene
ENSGALG00000016111 | CSMD3
Description
CUB and Sushi multiple domains 3 [Source:HGNC Symbol;Acc:HGNC:19291]
Coordinates
chr2:132836794-132837293:-
Coord C1 exon
chr2:132837120-132837293
Coord A exon
chr2:132836868-132837119
Coord C2 exon
chr2:132836794-132836867
Length
252 bp
Sequences
Splice sites
5' ss Seq
TAGGTAAGG
5' ss Score
9.31
3' ss Seq
TAAAATATATATTTTTTAAGAAC
3' ss Score
4.54
Exon sequences
Seq C1 exon
CAAAATTTTGTGGTGACCCTGGAGTACCCGCTCAAGGGAAAAGAGAAGGCAAGAGCTTCATCTACCAGTCAGAAGTCTCATTCATCTGCAATCTGCCTTTTATTTTGGTTGGCTCCAGCACCAGGATTTGCCAAGCAGATGGCACCTGGAGTGGTTCTTCACCTCGATGCATAG
Seq A exon
GTAAGGTGACACCCATATTGTAGTCATTTCCTGAATGCTTATTATTCCTTTTCCTGTAAGTCAGTCTAGGCATTTTCAGCTACTTCACATCATCTTCATGTTTTTCTATACTGTCTGAGAATCAAGTCATTTTATTTCTTTTTCTCTCATTGGCTCATTGCACATTTTTGAGCAAAATATTTTTATATATTCATGTTTCATTACAATATTATACTTCGCTTTGTCTCTAATTTAAAATATATATTTTTTAAG
Seq C2 exon
AACCTACTCGCACAGCATGTGAAAATCCAGGAGTACCAAGGCATGGATCGCAAAACAACACATTTGGCTATCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000016111:ENSGALT00000025958:62
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.017 A=NA C2=0.200
Domain overlap (PFAM):
C1:
PF0008415=Sushi=WD(100=91.5)
A:
NA
C2:
PF0008415=Sushi=PU(32.7=72.0)
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:
CAAAATTTTGTGGTGACCCTGGA
R:
TAGCCAAATGTGTTGTTTTGCGA
Band lengths:
244-496
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]