BtaINT0031603 @ bosTau6
Intron Retention
Gene
ENSBTAG00000006572 | CARD9
Description
Bos taurus caspase recruitment domain family, member 9 (CARD9), mRNA. [Source:RefSeq mRNA;Acc:NM_001077111]
Coordinates
chr11:103880017-103880418:-
Coord C1 exon
chr11:103880239-103880418
Coord A exon
chr11:103880161-103880238
Coord C2 exon
chr11:103880017-103880160
Length
78 bp
Sequences
Splice sites
5' ss Seq
CAGGTGGGC
5' ss Score
8.07
3' ss Seq
CCCTCTCCCTTCACCCACAGGAG
3' ss Score
12.07
Exon sequences
Seq C1 exon
ATCGACCGGCTGAAGCACAGCCTCATGAGGGCGGAAGACGACTGCAGGGTTGAGCGCAAGCACACGCTGAAGCTCAGGCATGCCATGGAGCTGCGGCCCAGCCAGGAGCTGCTCTGGGAGCTGCAGCAGGAGAAGGCGCTGCTGCAGGCGCGCGTGCAGGGCCTGGAGGCCTCGGTGCAG
Seq A exon
GTGGGCCTCCGGGCCGGCGGCGGCGGGCTTGGGGGGAGCCGGGCCCGTCCCCCCACCACCCTCTCCCTTCACCCACAG
Seq C2 exon
GAGGGGAAGGCGGACCCGGGCCGCCCCCACGTCCAGGTGCCAGAGGAGGACTGGCAGCGGGTGCAGCGGGACCTGCAGCAGCAGGCCGCCACCATCTTCTCCCTGCGCAAGGACCTGCGCCAGGCCGAGGCCCTACGCACCCGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000006572:ENSBTAT00000008634:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.083 A=NA C2=0.479
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:
CTGAAGCTCAGGCATGCCATG
R:
CAGTCCTCCTCTGGCACCTG
Band lengths:
167-245
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development