BtaINT0031602 @ bosTau6
Intron Retention
Gene
ENSBTAG00000006572 | CARD9
Description
Bos taurus caspase recruitment domain family, member 9 (CARD9), mRNA. [Source:RefSeq mRNA;Acc:NM_001077111]
Coordinates
chr11:103880239-103880792:-
Coord C1 exon
chr11:103880488-103880792
Coord A exon
chr11:103880419-103880487
Coord C2 exon
chr11:103880239-103880418
Length
69 bp
Sequences
Splice sites
5' ss Seq
GAGGTGCCT
5' ss Score
4.01
3' ss Seq
AGCACTCCCGCTCCCCGCAGATC
3' ss Score
11.16
Exon sequences
Seq C1 exon
ACGCCTCTGGCGAGTCAGGCCTGACGCAGCTGCTAATGAGCGAGGTGATGAAGCTGCAGAGGAAGGTGCAGGAGCTGACGGCGCTGCTGGGCTCCAGAGACGACCTCGCCGAGGAGCTGCGCGTGAAGGACAGCCTGCTGCGCAAGCTCCAGGAGCGTGTGCAGCGGCTCAAGGAGGCCTGCGAGGCGGGCAGCCGCGAGCTCCAGCGCTGCAAGGACGAGAACTACGACCTGGCCCTGCGCCTGGCCCGCCAGAGCGAGGAGCGCGACGCGGCCCTCACGGGGCACCGCGGGCTGCTGCTGGAG
Seq A exon
GTGCCTGGGGCGGGGGGCGGGGTGGGGCAGGTCCCCGGCCGACACTGACAGCACTCCCGCTCCCCGCAG
Seq C2 exon
ATCGACCGGCTGAAGCACAGCCTCATGAGGGCGGAAGACGACTGCAGGGTTGAGCGCAAGCACACGCTGAAGCTCAGGCATGCCATGGAGCTGCGGCCCAGCCAGGAGCTGCTCTGGGAGCTGCAGCAGGAGAAGGCGCTGCTGCAGGCGCGCGTGCAGGGCCTGGAGGCCTCGGTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000006572:ENSBTAT00000008634:4
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=0.083
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:
AGGACGAGAACTACGACCTGG
R:
CATGGCATGCCTGAGCTTCAG
Band lengths:
179-248
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development