BtaINT0044562 @ bosTau6
Intron Retention
Gene
ENSBTAG00000005784 | CSMD2
Description
CUB and Sushi multiple domains 2 [Source:HGNC Symbol;Acc:HGNC:19290]
Coordinates
chr3:112888934-112889837:+
Coord C1 exon
chr3:112888934-112889045
Coord A exon
chr3:112889046-112889604
Coord C2 exon
chr3:112889605-112889837
Length
559 bp
Sequences
Splice sites
5' ss Seq
TCCGTGAGT
5' ss Score
8.93
3' ss Seq
ATGTCTTCCCTCTTATCCAGCCC
3' ss Score
8.4
Exon sequences
Seq C1 exon
GTTGGAAGCACCGTGCTCTTCCGTTGTCAGAAAGGTTACCTGCTCCAGGGCTCCACCTCCAGGACGTGCCTCCCCAACCTGACCTGGAGCGGAACCCCGCCCGACTGTGTCC
Seq A exon
GTGAGTGCTCCCAGATAACTCCTCTCAGCAGCTCATAGCCTCCCCGACCTGGGCCTCCAGGATGTGCTTGAATGCTCTGAGTGACAGGGAGCTCACAGCTTCTCATTGGGACCGTAGTGGTCTCTTTGCAGTCCTGATCCCTTGGGTCCCCCCACCCCCAGAAGGTATTTCTTCACAAATGCCTTTCTGGTATTTGAAGGCAATTCCTATGCCTTAGCAAAGAAAAAGAAAGAACTTTCCCATGGCTGTAGATACCAACAGTGACAAGGCCCACCCTCAGGATGGAAATTTCGGGCTTTTGACTGTAATTATTCCCTTTCCCTCAGGAAAAGTGCCTAGATTCCCTCAGGGTCAGCTGAGTCATTATCCACATCATCTCCGTCTTGACCACTTGCATAGACATCAAGGCTGGGGTGGGGTGTGGGAGGGGATGCTGGCCATGAAAGGGGCCCATAAGGGAAAGGATGGGGCTGTTCCATCGAGAAACAGGGGCATGGGGGAGAGGCCTCCTGGAGACCCCAATCTCCCCCTGCCCAGCAATGTCTTCCCTCTTATCCAG
Seq C2 exon
CCCACCACTGCAAGCAGCCAGAGACACCAAGCCATGCCAACGTCGGGGCGCTGGACCTGCCCTCCATGGGCTACACGCTCATCTATTCCTGCCAGGAAGGCTTCTCCCTCAAGGGTGGCTCCGAGCACCGTACCTGCAAAGCAGATGGCAGCTGGACAGGCAAACCACCCATCTGCCTGGGTGCGTGTGCCCCCTCGGTGAACCTCTCCAGGGTGGGAGGCCAAAGGGGACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000005784:ENSBTAT00000007609:69
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=0.090
Domain overlap (PFAM):
C1:
PF0008415=Sushi=PD(63.6=92.1)
A:
NA
C2:
PF0008415=Sushi=WD(100=71.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CGTGCTCTTCCGTTGTCAGAA
R:
CTGTCCCCTTTGGCCTCCC
Band lengths:
334-893
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]