BtaINT0044560 @ bosTau6
Intron Retention
Gene
ENSBTAG00000005784 | CSMD2
Description
CUB and Sushi multiple domains 2 [Source:HGNC Symbol;Acc:HGNC:19290]
Coordinates
chr3:112885316-112885880:+
Coord C1 exon
chr3:112885316-112885489
Coord A exon
chr3:112885490-112885806
Coord C2 exon
chr3:112885807-112885880
Length
317 bp
Sequences
Splice sites
5' ss Seq
TAGGTGAGG
5' ss Score
7.65
3' ss Seq
TCTTTGTTTTTGCAATCCAGACC
3' ss Score
6.61
Exon sequences
Seq C1 exon
CGGTGTTCTGCGGAGACCCTGGCGTCCCAGCCCGAGGCAGGAGAGAGGACCGGGGATTCTCCTACAGATCGTCTGTCTCCTTCTCCTGCCAGCCCCCTCTGGTGCTGGTGGGCTCTCCACGGAGGTTCTGCCAGTCAGATGGGACATGGAGTGGCACTCAGCCCAGCTGCATAG
Seq A exon
GTGAGGTGACCGGGAGCAGGGTGTCCCTGCTGGCGGACATCCTTCTTGAGGGCCCAAGATGATGGATTTTCTTCCCTGTCTCATCTGCAAAACAGAGCAAATGCTCCTCCAAGCTCCTTAAAACAGGATGTGAAGTAGCCAGCGTTCACAGGCTGCCGGGAATCACAGTCAGCCAGGGGATGACTCGAGGGGAGAGTCCAAAAGGCAGGGCCACTGGGACATGCCTCCATCCCCTTTCTCATGTCTGTTTCTCAGGGTGTGCAGGGACCACAGAGGTTTCTGTGACCATGGTCTGTTTCTTTGTTTTTGCAATCCAG
Seq C2 exon
ACCCCACACTGACCACATGTGTGGACCCCGGCGTGCCGCAGTTCGGGATACAGAACAACTCCCAAGGCTACCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000005784:ENSBTAT00000007609:67
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.034 A=NA C2=0.040
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
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGTGTTCTGCGGAGACCCT
R:
TGGTAGCCTTGGGAGTTGTTC
Band lengths:
246-563
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]