BtaINT0031601 @ bosTau6
Intron Retention
Gene
ENSBTAG00000006572 | CARD9
Description
Bos taurus caspase recruitment domain family, member 9 (CARD9), mRNA. [Source:RefSeq mRNA;Acc:NM_001077111]
Coordinates
chr11:103880488-103881457:-
Coord C1 exon
chr11:103881320-103881457
Coord A exon
chr11:103880793-103881319
Coord C2 exon
chr11:103880488-103880792
Length
527 bp
Sequences
Splice sites
5' ss Seq
TCGGTGAGC
5' ss Score
9.1
3' ss Seq
TGATCCCGCCCGCTCTGCAGACG
3' ss Score
7.51
Exon sequences
Seq C1 exon
GAGTGCTCCTGGACATCCTGCAGCGGACGGGCCACAAGGGCTACGTGGCCTTCCTCGAGAGCCTGGAGCTGTACTACCCGCAGCTCTACAGGAAAGTCACGGGCAAGGAGCCCACCCGCGTCTTCTCCGTGATCATCG
Seq A exon
GTGAGCGGTGGGTGCAGGCCTGGAGCGCGAGGGGCAGAGAACCTGGTCCCTGTTGCGTAACCGCCGGTGAAAGGAAAGGAGTGAGCCTCACGTGGGGCTGCCAGCTTCTGTCCCTGTGTGGGCGTCCCTCCCATCCCGCCGGCTGAGCTCGTGGAGGGGCAGAGGCTGCAGGAAAGGGAGCCCGAGCCCCAGGGTGGGGCCTGTGGGAGGGGGGAGGCATAGGCTGATGCTTGGCCCAGAGCCCCTTCTACCCAGAAGGCCCTCTGACCTCGCCGAAGCCCTGCCCGAGAAGCCAGCAGGGTCACATCCTCCCACCTCTCAACCAAGACAGAATTAGAGAGGGATGGACGCCCAGACCCCGGGCTGTCCTGCCCTGGTGGGGTCGGCGGGGTGGGTGGGAACAGGGCCCGGAGGTGAGTCCGCGCCTCAGTTTGTCCCCCAGGCGGGGAGCTGACCCCTTGGCCAAGCCGCCCCGGAGCCACTAGGTCCTCGAGTGCGGGCGCCATCTGATCCCGCCCGCTCTGCAG
Seq C2 exon
ACGCCTCTGGCGAGTCAGGCCTGACGCAGCTGCTAATGAGCGAGGTGATGAAGCTGCAGAGGAAGGTGCAGGAGCTGACGGCGCTGCTGGGCTCCAGAGACGACCTCGCCGAGGAGCTGCGCGTGAAGGACAGCCTGCTGCGCAAGCTCCAGGAGCGTGTGCAGCGGCTCAAGGAGGCCTGCGAGGCGGGCAGCCGCGAGCTCCAGCGCTGCAAGGACGAGAACTACGACCTGGCCCTGCGCCTGGCCCGCCAGAGCGAGGAGCGCGACGCGGCCCTCACGGGGCACCGCGGGCTGCTGCTGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000006572:ENSBTAT00000008634:3
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:
PF0061916=CARD=PD(40.2=74.5)
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:
TGGACATCCTGCAGCGGA
R:
GTAGTTCTCGTCCTTGCAGCG
Band lengths:
356-883
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development