BtaINT0044603 @ bosTau6
Intron Retention
Gene
ENSBTAG00000038281 | CSMD3
Description
CUB and Sushi multiple domains 3 [Source:HGNC Symbol;Acc:HGNC:19291]
Coordinates
chr14:54322396-54323537:+
Coord C1 exon
chr14:54322396-54322476
Coord A exon
chr14:54322477-54323423
Coord C2 exon
chr14:54323424-54323537
Length
947 bp
Sequences
Splice sites
5' ss Seq
TAGGTAAAG
5' ss Score
6.93
3' ss Seq
TCTGCCTGTTTTTTCAATAGGTG
3' ss Score
11.96
Exon sequences
Seq C1 exon
CCTATCAACTAAGAGTGTGTCAACCTCCACCACCCGTACCCAATGCTGAAATTTTGACAGAAGATGATGAATTTGAAATAG
Seq A exon
GTAAAGTCTCTTAAATTACTTTCAAAGAAAGCATACTGTTAACAAAGGTTTTGCTTAAAATCAATAAAAATAAAGAATAGTAGCAGCCTGTCTTAAACCTTCTTTCCCTGGATTGATGGGGATTGTTTAGAATTTGTAAGAATGGAAAACAGTGAAAAGAGGCAAGGTATTGTTAGGTAAGAAAAAAGAATTCTGTATTTTTAGGATGTACAGTTAGAAAACAGTACAGGAATCTGAGCCATATAACTATTCTGGTAGTTATTATTTTGCTACCTTCCAACACTGTAGTCTTAACTATTGTTCTTCAAATTCAGGCATAAACTTGATATGTATAATAAATGATATGCAGGGTGTATTAGATGACATATTTGATTTCCATATCCTTGAAAACAGCTCATTATATTCCATGTGATCATAAATAAAGTCCTTTTAACACTGACTGGAAATTTGACGTCAATAATATCTCATAGCTTGAAAAATTATGTAAGAAAATAATGCATCTTAATGTAACATAATAATTTCATCATTATTATCTATTAATATTAACTTTGGTTGAGAAATGTAAGAAAATATCAATGACCAATGTGAAACTAATCTTGATAGCAGTAACTAGTAATCCTTTTAAACTGCTTGATATACTTTTAATGACTATCTTACCCATACCAACAAAATTATTTCCTTACTAGTATTGCTTATATATAATCAGATTGCCCCAGTACCAGTTTTACTGGTATTTATTCTTGGCTTCAGTTCCAATTGGTCAGTGCTCATGGCTTACTAGTAGTTTAATATTCTGAATATCATTGCTGCTTACAACTAATAGAGTTTTTATACTGATTGAAAATAACCGAAAGAAAAAATATTCAGATTTTATAACTGAACCATCTGTTTATTTTAACCATTACCTTGGTGCTTAATGAAGCCCTTTCTGCCTGTTTTTTCAATAG
Seq C2 exon
GTGATATTATTAGATATCAGTGTCTTCCAGGATTTACTTTGGTTGGTAATGCAATTCTGACCTGCAGATTAGGAGAACGACTCCAGATGGATGGAGCACCTCCCGTTTGTCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000038281:ENSBTAT00000027766:44
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.071 A=NA C2=0.051
Domain overlap (PFAM):
C1:
PF0008415=Sushi=PU(36.2=75.0)
A:
NA
C2:
PF0008415=Sushi=PD(62.1=92.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAACTAAGAGTGTGTCAACCTCCA
R:
CTTGACAAACGGGAGGTGCTC
Band lengths:
190-1137
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development