HsaINT0027757 @ hg19
Intron Retention
Gene
ENSG00000187796 | CARD9
Description
caspase recruitment domain family, member 9 [Source:HGNC Symbol;Acc:16391]
Coordinates
chr9:139258408-139259011:-
Coord C1 exon
chr9:139258935-139259011
Coord A exon
chr9:139258854-139258934
Coord C2 exon
chr9:139258408-139258853
Length
81 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGGC
5' ss Score
9.88
3' ss Seq
TGAGACACCTGTCTTCACAGGAA
3' ss Score
6.85
Exon sequences
Seq C1 exon
GACGCAGGCCTGAGCAGCGGGGAGCCGCCCGAGAAGGAGCGGCGGCGCCTCAAAGAGAGTTTTGAGAACTACCGCAG
Seq A exon
GTAGGCGGGCGGCCCCCAGGCTTCTCCAAAACGGGCTGGGGAGCGGCAGCCGGGTCGCGCCTGAGACACCTGTCTTCACAG
Seq C2 exon
GAAGCGCGCCCTCAGGAAGATGCAGAAAGGATGGCGGCAGGGGGAGGAGGACCGGGAGAACACCACGGGCAGCGACAACACCGACACTGAGGGCTCCTAGCCGCAGCAGCGCAGGCCCCGACCAGGGCACACCCACCGGCCCGGCCTCCTGCCACCCGGGGGTGCCGACGCCCTGGGGCGCAGACTTCCCCGAGCCGTCGCTGACTTGGCCTGGAACGAGGAATCTGGTGCCCTGAAAGGCCCAGCCGGACTGCCGGGCATTGGGGCCGTTTGTTAAGCGGCACTCATTTTGCGGAGGCCATGCGGGTGCTCACCACCCCCATGCACACGCCATCTGTGTAACTTCAGGATCTGTTCTGTTTCACCATGTAACACACAATACATGCATGCATTGTATTAGTGTTAGAAAACACAGCTGCGTAAATAAACAGCACGGGTGACCCGCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000187796-CARD9:NM_052813:12
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=0.910
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAGCCGCCCGAGAAGGAG
R:
CTAGGAGCCCTCAGTGTCGG
Band lengths:
156-237
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Genotype-Tissue Expression Project (GTEx)
- Autistic and control brains
- Pre-implantation embryo development
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)