HsaINT0027764 @ hg19
Intron Retention
Gene
ENSG00000187796 | CARD9
Description
caspase recruitment domain family, member 9 [Source:HGNC Symbol;Acc:16391]
Coordinates
chr9:139261668-139262280:-
Coord C1 exon
chr9:139262089-139262280
Coord A exon
chr9:139261710-139262088
Coord C2 exon
chr9:139261668-139261709
Length
379 bp
Sequences
Splice sites
5' ss Seq
CTGGTGGGC
5' ss Score
4.81
3' ss Seq
CCCATTTTCTATGACCACAGAGC
3' ss Score
6.76
Exon sequences
Seq C1 exon
GCCATAGCCACGCGGGAGGAGCTGCACGCACAGCACGCCCGGGGCCTGCAGGAGAAGGACGCGCTGCGCAAGCAGGTGCGGGAGCTGGGCGAGAAGGCGGATGAGCTGCAGCTGCAGGTGTTCCAGTGTGAGGCGCAGCTACTGGCCGTGGAGGGCAGGCTCAGGCGGCAGCAGCTGGAGACGCTCGTCCTG
Seq A exon
GTGGGCCTGGGGCCTGCGGCAGGGAGGGGAGCCGGCGCGTGGGATGCAGGGCCAGGGGAGCACGGAGCCTCAGCCCCGGCCTTCCCGACCCAACCCTTCTCTGTGACGGGCCCCAACCTAACCAAACCCCTCCTGGCAGTGGGGTGAGGGCACACGAGCAGTTCAGGGTCCCAGCAGGAAGTGGGGCTGCAGGGCCGGGGTGGGTCCTGGGCCTGGCCATCAGGCAGCCTAGCAGGTTGTTCTGGGCATGGAGGGGGCCTGGTGTGGCTGAGGGCATGCCCAGGGCTCCCTGGAGGATCCCGCTCTGTGCCCTGCCCACCCTGTGCCTGGGGAGCCCTCTGCCCTCACAGCCCACCCACCCCATTTTCTATGACCACAG
Seq C2 exon
AGCTCCGACCTGGAAGATGGCTCACCCAGGAGGTCCCAGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000187796-CARD9:NM_052813:8
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.219 A=NA C2=0.738
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATAGCCACGCGGGAGGAG
R:
CCTCCTGGGTGAGCCATCTTC
Band lengths:
222-601
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)