BtaINT0044548 @ bosTau6
Intron Retention
Gene
ENSBTAG00000005784 | CSMD2
Description
CUB and Sushi multiple domains 2 [Source:HGNC Symbol;Acc:HGNC:19290]
Coordinates
chr3:112840982-112842392:+
Coord C1 exon
chr3:112840982-112841167
Coord A exon
chr3:112841168-112842197
Coord C2 exon
chr3:112842198-112842392
Length
1030 bp
Sequences
Splice sites
5' ss Seq
TCCGTGAGT
5' ss Score
8.93
3' ss Seq
TCTGCTTTGTACCTCCCCAGCTG
3' ss Score
8.26
Exon sequences
Seq C1 exon
CTCTTTCCTGTGGGCTTCCTGAGGCCCCCAAGAATGGAATGGTGTTTGGCAAAGAGTACACAGTGGGGACCAAGGCTGTATACAGCTGCAGTGAAGGCTACCATCTCCAGGCAGGTGCTGAAGCCACAACAGAGTGTCTGGAGACAGGCCTGTGGAGCAATCGCAATGTACCCCCCCAGTGTGTCC
Seq A exon
GTGAGTCCTTTGGGTAGGGGAGGCGGGTATGTCGGGGGGACTGGGTAAGCAGCTGAAAAGATTCCTGCAAGGAGTGAGCGAAATAGGAAAAACATGCCCTGAGAGGCTGGGACTCAGATCTGAGACAAGTGGATATCTCCATCTACCAACTTGGGTTCCATTTGAAATTGCTTCAAAACATTGATAGACCACTGTTCTCTGAGATGTATCCATAAACCATCACAGAACCTCAGGATGACTGGTCCACTTACTCTTAGATGTAAAAAGTATTAGAAAATCAACGTGAATGTCCTTTGATCACAAGACTCTAAAACAACAGAACGAGTGAGTGATAGTCACTCAGTCGTGTCCGACTCTTTGTGACCCCATGGACTGTAGCCTGCCAGACTCCTCTGTCCATGGACTTCTCCAGGCAAGAATATTGGAGTGGGTTGCCATTTCCTTCTCCAAAACAACAGAGGTACTGTTCAATTTGAAGGCCAGTGGGCAGCCTAATGGGCTATATCCAGTCTGATGATACAAGGTTTTTTGTTTTGGTTTTGGTTTGGCTCTTCGGCCTGTGCAGTGCTTTATAAAAATATTTTGTAACCTTATGGCCAATCCATGTTGATGTATGGTGAAAAGCATCACAATATTGCAATTACCCTATGATTAAAAATAAAATAAATAGTTTGAATTTCTTTCTAACATTTTTAAGTCAGAAGACTTTTACACAAAAATCCTATTTCTAGCTTCCCTTGGAAGAGGTAGATCTGACCACCTGGAATTTGCAGTCTCACATCCACAATCAAAACCAACACAGTGCCACCTCCCCCCTATTTTTTTTTTAATTTGGCAGATCTGCCACCCCAGTCGTGTGCCACATTCCCCACCCAGCTCACTTCATTCATAGACCACATCTGCCTGGGGACTGAATGTTCTGAGAGTCATCAGGACTGCATTATGGTCCCCCACTCCCCAACGCTGGGCTCTCGCCAGTGTCGTCCGTAATTAATGAATGAATCCTCCTTTCTGCTTTGTACCTCCCCAG
Seq C2 exon
CTGTGACCTGTCCTGACATCAGCAGCGTTAGTGTGGAACATGGTCGATGGAGGCTCATCTTCGAGACACAGTACCAGTTCCAGGCCCAGCTGATGCTCATCTGCGACCCTGGCTACTACTACACCGGCCAAAGGGTCATCCACTGCCAGGCCAATGGCAAATGGAGCCTTGACAACTCTATGCCCACCTGCCAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000005784:ENSBTAT00000007609:56
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=92.1),PF0008415=Sushi=PU(0.1=0.0)
A:
NA
C2:
PF0008415=Sushi=WD(100=97.0)
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:
CTTCCTGAGGCCCCCAAGAAT
R:
TGGGCATAGAGTTGTCAAGGC
Band lengths:
358-1388
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]