BtaINT0031595 @ bosTau6
Intron Retention
Gene
ENSBTAG00000006572 | CARD9
Description
Bos taurus caspase recruitment domain family, member 9 (CARD9), mRNA. [Source:RefSeq mRNA;Acc:NM_001077111]
Coordinates
chr11:103881649-103883072:-
Coord C1 exon
chr11:103883016-103883072
Coord A exon
chr11:103881835-103883015
Coord C2 exon
chr11:103881649-103881834
Length
1181 bp
Sequences
Splice sites
5' ss Seq
AAGGTAGGC
5' ss Score
10.08
3' ss Seq
GCGGCCGCCCCCCACCCCAGCCA
3' ss Score
3.65
Exon sequences
Seq C1 exon
CGGCACGGCACTGAATCCGACAGACAGGCGTGCAGGTGCCCCCCAGGCGGATGCAAG
Seq A exon
GTAGGCTGACCCAATGCCCTTCCCTCAGGTGGCGCCCCAAGCTCGGGCCTGGGGCAGGGGACGGGGTGTGGGGCAGACCCAGCGGGGCACCAGGGAGTCCTGGCTATGTGGCCTGTCCCTGCTCCACGGCCACCCTGTGCCGGCCTGTCGCTTCAGCAGAGGGAGCCGTGGGGGTCGGCAGGTGCAGGATGCATAGACGTCAGGGTTGGCAGGCAGGGGCCGGCCCGGGGGTGCTTTCATTCAGCGCCTCGTCTGCCCCGGGCAGGCGGTGCAGCCCGAACCTGCCACCACCCTCGTCCCTAGGAGTGTAGCCCGTTCCCTGCGAGCTGGAGGCTTGTCCTTCTCTTGCCGCCACGGATCGGAAGCTTAGTGGGAGGTGGCGGGGTCAGGGTCTCCATCCCCGCTGCCAGGAGGAGGCAACCCGCGGCTGCCCCCAGCTCAGCCTAGCCCTGGAGAGAGGGGCTTCTGGACATGGAGCAGGAGGGAGGTGCAGTGGGCCGTTCCGGCGTAGGGGGGGTCTCCTGGTGGAGAGCTGGCTGGGCAGCCCTCAAGAGCGAGGCCTCGTCCGGGAGGTGTAGAGGAGCCCTGACAGCTAGGGCCCAGGGCCCGGGAGCCCACCCCTCCCAGGACACCCGGGCCTGCACCCTCCAGTGGGCCGTCCACAGGCACCCTTCCTGGAGGGCACCGCGTCGCCAAGCCTGACCCGGGCGGGAACGGCCCAGTAGCTGCTGGGCAACTGTTGCATCACCGGAAGAAGGGAGGCTGGGAGGATTGGACGTGAGGGCTGCTGTCCCGCGGGCAAGGAGGAAGTCCCGAAGCACAGCCTGGGGCCCGGGTGCCCGGCACTGGCCCCCTCCCTCACGTGCCTTCCGCCAGCCCCCACAGCACTTGGGGTGTCCTGGGGGGTCGGGCAGGGCCAGAGGAGGGCCGCGGGGCTGGCGACTGTGTCCTCCTGGACACCACCCTGACCCTGGAGCATCTCCACGCCACCCCTGACGCTTACCAGGGTCCCTTGGAAGAGAAAGCCCAGGGCGCCTGGAGGGTCGGCAGCAGGGCCTGGGGAGGCGAGGGGAGATGCTGGGTGAGTCGACGGCAGCAGGGGGCTCCTCCCGCCACGGCCGAGACGGCTGGCCTGGGCCCCCGCGGGCCCGCGGCTCAGCAGCGGCCGCCCCCCACCCCAG
Seq C2 exon
CCATGTCCGACTATGAGAACGAGGACGCATGCTGGAGCGCCCTGGAGGGCTTCCGGGTGAAGCTCATCTCTGCCATCGACCCCGCCCGCGTGACGCCCTACCTGCGCCAGTGCAACGTGCTGAGCCCCGACGACGAGGAGCAGGTGCTCAGCGACCCCAGCCTGGTCACCCGCAAGCGGAAAGTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000006572:ENSBTAT00000008634:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=0.032
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
PF0061916=CARD=PU(58.6=82.3)
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CACGGCACTGAATCCGACAG
R:
ACTTTCCGCTTGCGGGTG
Band lengths:
238-1419
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development