BtaINT0044468 @ bosTau6
Intron Retention
Gene
ENSBTAG00000009739 | CSMD1
Description
CUB and Sushi multiple domains 1 [Source:HGNC Symbol;Acc:HGNC:14026]
Coordinates
chr27:1167965-1168958:-
Coord C1 exon
chr27:1168813-1168958
Coord A exon
chr27:1168046-1168812
Coord C2 exon
chr27:1167965-1168045
Length
767 bp
Sequences
Splice sites
5' ss Seq
ACGGTCAGT
5' ss Score
8.02
3' ss Seq
TTTTTATATAAATGATGTAGCAT
3' ss Score
3.26
Exon sequences
Seq C1 exon
GGATGGTCCTGATCAGAATTCTCCACAGTTGGGGGTTTTCAGTGGGAACACCGCCCTGGAGACAGCATACAGCTCCACCAACCAAGTCCTGCTCAAATTTCACAGTGACTTTTCAAATGGAGGTTTCTTCGTCCTCAATTTTCACG
Seq A exon
GTCAGTGTATTTTCACTCCATTGATGATGGCAGAGAATCCTAGCTGACTTTTCTCATAGGATTGACACAAACTTTGTTTACAGCTAAAGTTCCATGTTTCTGTCAACCAAAAGCCTATAGGATTTTCTCACATTTCATGCTGAGGTTCCTGTGATTCCTTTTCCTTACTGACGTATTTAGGACTTCACATCTCTTTTATAGTTTATCTTGGATTTGCCCCCAGGATAAGTGTATTGTATGTGAAACTCTGATATGGAGACCATGGAAATACATTTAGTAGCTCTCAGAGATTTCCTCATCTCTGTCTCCAGATGAACCTCGATAGTGAATGTTGTGTAATTTTAGATGGGGCAAAGCGAATCTCTACTGATGTTGAGAATGAATGCTAAATAGTTTGGGGAAAAGCATTACCAGTCCCTTATCTCTCTTGAGGACTGCCACATGCAAATCCTCAGGACAAGAGACTGAGGAAGATGATGCCAGATCCTGATGGACATGGAACCAGCATGAACCATTTCTCCTGCAGAATTCCAAATATATGTAAAATGTTTCTATTTAAACATCATAATTTTTTTAAATGGTGTACTTTTCCCTTTCAATTTTGTAAGCATTTGAAGCTAGAGACTTTAGTAAAACTATAATTTACAAATATAGATATTTTCCTAGACCTAAGCATTGTAACAACACAAGAGAGATGTTTTTTGTAAGATTTTTGTTTATTCATCAAATGTAATTTCACTTATTATTTTTTTATATAAATGATGTAG
Seq C2 exon
CATTTCAGCTCAAGAAATGTCAGCCTCCCCCAGCAGTTCCACAGGCAGAAATGCTTACAGAGGATGAGGATTTTGAAATAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000009739:ENSBTAT00000012850:41
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.020 A=NA C2=0.179
Domain overlap (PFAM):
C1:
PF0043115=CUB=PD(44.8=94.0)
A:
NA
C2:
PF0008415=Sushi=PU(36.2=75.0)
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:
GGATGGTCCTGATCAGAATTCTCC
R:
TCAAAATCCTCATCCTCTGTAAGCA
Band lengths:
222-989
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]