BtaINT0044483 @ bosTau6
Intron Retention
Gene
ENSBTAG00000009739 | CSMD1
Description
CUB and Sushi multiple domains 1 [Source:HGNC Symbol;Acc:HGNC:14026]
Coordinates
chr27:1050515-1051501:-
Coord C1 exon
chr27:1051325-1051501
Coord A exon
chr27:1050695-1051324
Coord C2 exon
chr27:1050515-1050694
Length
630 bp
Sequences
Splice sites
5' ss Seq
CGCGTGAGT
5' ss Score
8.4
3' ss Seq
GTCTGTTCTCTGCTGATTAGTCA
3' ss Score
3.62
Exon sequences
Seq C1 exon
CTGTGTCCTGTGGGAACCCGGGGACGCCCACCCACGGCAAGATCGTCAGCAGCGATGGCGTGCTGTTCTCCAGCTCGGTGGTCTACGCCTGCTGGGACGGCTACAGGACCTCGGGGCTGACCACTCGCCACTGCACCGCCAACGGGACCTGGACCGGCACGGCCCCCGACTGCACGC
Seq A exon
GTGAGTGGCCGCCGTCCTGGCCAAATCCAGGTCCCCACAGCGACTCGTACTTGACTGAGAAAAAGGAGTTGAGTTTACAGAGGGCTGTATTGTTTAATCCCTAGGGAAAAAAAGGATTATATCATACGTATGTTTGATAATATGACCACTTTCTAAGCACTTTCAGATTTTTCTTCACTTTCTTATTTATATGCTTAAAAGTGCTTTGCCTGGCTGGTTGGGTTGGATATTACAAAACTGAGTTCAGAAAAGCCAAGGTTCCTTCTCTCTGTAGACCAGTTAGTCTGAAGGGAAATGGTGCAGGAGCCTGTTCTCTGATCTCAGCCTGTGTCTCTGTCCTTGACCTTGTGGGGTGACCCCTCACGACATGTAGTTAAGGACAGAACGAGGATGACAGCTGTCATCCACACAGACAACTATCAGTGGAGTAGAAATAAGTGGTTCCAAACATGCAGCCTCCTGACTGCCAGCCAGCGAAACTGTCCCCCAGATAGGTTGGTATCGCGGTGCTCAGCCACGGCATCATTGCTCTGAAGAGCAGCTTAAGGAGAGTCACTTAAACAGAAACCAGGAATAAGTCATCCCGTGATGATACTGTGTCTCTCTGTTTGTCTGTTCTCTGCTGATTAG
Seq C2 exon
TCATCAGCTGTGGAGACCCAGGGACCCTGGCTAACGGCATCCAGTTCGGGACGGATTTCACCTTCAACAAGACGGTCAGCTACCAGTGCAACCCCGGCTACACCATGGAGCCCGCCACGTCCCCCACCATCCGCTGCACCAAGGACAGTACCTGGAATCACAGCAAACCGACCTGCAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000009739:ENSBTAT00000012850:55
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=91.7)
A:
NA
C2:
PF0008415=Sushi=WD(100=91.8)
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:
CACCCACGGCAAGATCGTC
R:
CTTTGCAGGTCGGTTTGCTGT
Band lengths:
329-959
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]