BtaINT0044485 @ bosTau6
Intron Retention
Gene
ENSBTAG00000009739 | CSMD1
Description
CUB and Sushi multiple domains 1 [Source:HGNC Symbol;Acc:HGNC:14026]
Coordinates
chr27:1047375-1048180:-
Coord C1 exon
chr27:1048007-1048180
Coord A exon
chr27:1047549-1048006
Coord C2 exon
chr27:1047375-1047548
Length
458 bp
Sequences
Splice sites
5' ss Seq
TGCGTAAGT
5' ss Score
9.73
3' ss Seq
CTCCTGGTTGTCTTCTCTAGCTG
3' ss Score
8.97
Exon sequences
Seq C1 exon
CTGTCATGTGTGGCCAGCCTCCTCCAGTCCAGGACGGGAAGGTGGAAGGAACGGACTTCCGCTGGGGTGCCAGCATCAGCTACAGCTGCGCCCACGGCTTCCAGCTCTCCCAGCCCGCCATCCTCTCCTGCGAAGGCCGAGGGGTCTGGAAAGGCGAGGTCCCCCAGTGCCTGC
Seq A exon
GTAAGTCCTTGGGAGCACAGACCACGGCACACAAACCTCAGGCTGCAGTCTGAGGAAGAGAGCCTGCCAGACTTGTAGCCAGGGTGCAATAGGTTAAAGACTCCACGTTTGAGACCCGCTGCCCACGGGCAGATTCTGTGCTTTTCTTCATCGTTGATTCCTAAGGATTTAATGCGTGTATGTGCTTTGTGACCCATTGGACTATAGCCCTCTAGGATCCTCTGTCCATGGGCTTCTCTAGGCAAGAAGACTGGAGTGGGTTGCCATTTCCTTCTCCAGGGGATATTCCCTACCCAGGGATCAAACCTGCGTCTCCTGCACTGCAGGCTGATTCTTTACTCACTGAGCCTTCCGGGGCTTAATGGGAGGATTTATCGGAAAGCAGTTAGAGAAGCTGAATAGACTAACCTGACCCAGGGGCACAGACTGTGCACTGACCTCCTGGTTGTCTTCTCTAG
Seq C2 exon
CTGTGTTCTGCGGGGACCCCGGCACCCCTGCCGAGGGGCGCCTCAGCGGCAAGATCTTCACCTACAGATCTGAAGTCTTCTTCCAGTGCAAGTCCCCCTTCCTCCTGGTGGGGTCGTCCCGGAGAGTCTGTCAGGCAGACGGCACCTGGAGTGGCGTCCAGCCCACCTGCATCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000009739:ENSBTAT00000012850:57
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.051 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0008415=Sushi=WD(100=91.5)
A:
NA
C2:
PF0008415=Sushi=WD(100=91.5)
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:
GTCATGTGTGGCCAGCCTC
R:
GATGCAGGTGGGCTGGAC
Band lengths:
345-803
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]