BtaINT0044502 @ bosTau6
Intron Retention
Gene
ENSBTAG00000005784 | CSMD2
Description
CUB and Sushi multiple domains 2 [Source:HGNC Symbol;Acc:HGNC:19290]
Coordinates
chr3:112580498-112581402:+
Coord C1 exon
chr3:112580498-112580585
Coord A exon
chr3:112580586-112581277
Coord C2 exon
chr3:112581278-112581402
Length
692 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGA
5' ss Score
10.77
3' ss Seq
GGACATGCCTTGTCTCCCAGGTT
3' ss Score
6.01
Exon sequences
Seq C1 exon
TAACTCAGGTTGGTGTGTCCCAAGGGCATAATATGTGTCCAGACCCTGGCATACCTGAAAGGGGCAAAAGACTAGGCTCGGATTTCAG
Seq A exon
GTAAGATCTGTTTGGAAACATTCTCATTGTAGAAAGGGGGGTGGATGGCCTGGCTCGGGGGTCAGACAGGAGCTGGCCTTCCTGGAGGTGGACTAGCGAGGACCATGTGGATAGGCTCACTTCCTGGAGAAGAGCTTTGACCTTTAACATTCTCTCTTGTCCAGTCTTGGGAATACTGCCGCACCTTCAGGGAGAGGGTTGGGCTGTAGACTGCCAGTGTCACTGGGCAGACCTATACCCAGGGTACGAAGGGCCACCATCATCAGTAATGATGTGCCAGCAGGCAGCTCACACCGCCAATCATCTCAGAGACCCTAGGGCGCTGAGATGGTACCTTTTGTAAAGTTTCTAACTAACAACGCATCTTCTCATAATCGTCCAGTTTCGTGAAAATTTCTGGGTGTCATCCACCCACGCCTAGCTGTCCTAATTGATGTTTATCTCAGAGGACTGCTGTTTTGCTCACAAAGTCACCTTTTAACTCAATCCTAAAAGCAAATGGTCCAAAAAAAGAGAGATGAAGAGCAGGTGTTCCTTCTAATGAAGGTTTTAAGTGATAAACGGTGGAGCAGAGATTAAGGGCCAGGAGAGAAATAAAGTTTGGCGTGGTGCTCTTTATGGAACTAGGAAGGATTCAGGGATGGGCCTGGGAGGCCTAGGGGTGGGGCTCACGGACATGCCTTGTCTCCCAG
Seq C2 exon
GTTAGGATCCAGTGTCCAGTTCACCTGCAACGAGGGCTATGACCTGCAAGGGTCCAAGCGCATCACCTGTATGAAAGTCAGCGACATGTTTGCAGCCTGGAGCGACCACAGGCCGGTCTGCCGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000005784:ENSBTAT00000007609:12
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.400 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0008415=Sushi=PU(29.3=56.7)
A:
NA
C2:
PF0008415=Sushi=PD(69.0=93.0)
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:
AACTCAGGTTGGTGTGTCCCA
R:
GCTCCAGGCTGCAAACATGTC
Band lengths:
190-882
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]