BtaINT0044586 @ bosTau6
Intron Retention
Gene
ENSBTAG00000038281 | CSMD3
Description
CUB and Sushi multiple domains 3 [Source:HGNC Symbol;Acc:HGNC:19291]
Coordinates
chr14:54226278-54226986:+
Coord C1 exon
chr14:54226278-54226391
Coord A exon
chr14:54226392-54226887
Coord C2 exon
chr14:54226888-54226986
Length
496 bp
Sequences
Splice sites
5' ss Seq
CAGGTATCC
5' ss Score
7.91
3' ss Seq
TTAGTGTTTGTTTTGTTGAGTAG
3' ss Score
-5.73
Exon sequences
Seq C1 exon
TGGTGTTTGGCCAGTTTGTATTTTTCCAGACATCACTCCACGATGTTGTTGAGGTGTATGATGGGCCAACTCAGCAATCTTCTCTGTTATCTTCCCTCTCAGGATCCCATTCAG
Seq A exon
GTATCCTTTACTAGAACTGCCATGCATCAGTTATTGATAAAAGACTGACTTTGATTGGTAATGTAGTGAAAGTTGAGATTTATATCATCCATATTAGAAATAAAGTAAACTGAACATAAAGTCATTACTTTTTTAAAAAAGAATAGAAACGCAACAGTAATTCAGACTCTTGATAAAAATATAACCATTTTCTGGGATTGTAATCAAGTAAATATAGTATTTAGTCACTTTGTCCATGGTGTTTGATGTAATATTTAAAGATTCTTTACAAAATGAGGCAATATTATCAAAATGTAATAAAAGCCTTCCAGTAAAAAAAAAAGAAAAGGTTGCAATTGAAGCTGATCCCAAAATAATATATTGTCAGTGGTAGAATATATTAAAGTAATTTAATAGAGCATAGATTGATGTTTTCAAATGACAGTGTAAATTAGTATAATTTGTTAGGTTTACTGAATGAAATTATTTATGATATCTTAGTGTTTGTTTTGTTGAG
Seq C2 exon
TAGGAGAATCACTTCCACTGAGTTCAGGTAATCAGATCACAATTCGATTTACTTCAGTTGGACCAATAACAGCTAAGGGATTTCACTTTGTTTATCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000038281:ENSBTAT00000027766:27
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:
PF0043115=CUB=FE(35.5=100)
A:
NA
C2:
PF0043115=CUB=PD(29.0=91.2)
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:
TGGTGTTTGGCCAGTTTGTAT
R:
AACAAAGTGAAATCCCTTAGCTGT
Band lengths:
206-702
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development