BtaINT0031604 @ bosTau6
Intron Retention
Gene
ENSBTAG00000006572 | CARD9
Description
Bos taurus caspase recruitment domain family, member 9 (CARD9), mRNA. [Source:RefSeq mRNA;Acc:NM_001077111]
Coordinates
chr11:103879782-103880160:-
Coord C1 exon
chr11:103880017-103880160
Coord A exon
chr11:103879908-103880016
Coord C2 exon
chr11:103879782-103879907
Length
109 bp
Sequences
Splice sites
5' ss Seq
CGGGTAGGC
5' ss Score
7.5
3' ss Seq
CTAGCTGGCGTCTTCCGCAGAGC
3' ss Score
8.62
Exon sequences
Seq C1 exon
GAGGGGAAGGCGGACCCGGGCCGCCCCCACGTCCAGGTGCCAGAGGAGGACTGGCAGCGGGTGCAGCGGGACCTGCAGCAGCAGGCCGCCACCATCTTCTCCCTGCGCAAGGACCTGCGCCAGGCCGAGGCCCTACGCACCCGG
Seq A exon
GTAGGCAGCGGGGCCTCGCGTGGGGGTGCTGTCGGGGGGCCAGCCGCGGCCAGGAGCTGCCCTCCAGCCCGGCCACTGGGGCTGGCTGTCTAGCTGGCGTCTTCCGCAG
Seq C2 exon
AGCGCGGAGGAGAAGGAGACGTTGGAGCTGCAGTGCCTGGCCCTGCGGAGGGACTCCAAGATGTACAAGGACCGCATCGAGGCCATCCTGCAGCAGATGGAGGAGGTCGCCATTGAAAGGGACCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000006572:ENSBTAT00000008634:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.479 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
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:
ACGTCCAGGTGCCAGAGG
R:
CTGGTCCCTTTCAATGGCGAC
Band lengths:
242-351
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development