HsaINT0027759 @ hg19
Intron Retention
Gene
ENSG00000187796 | CARD9
Description
caspase recruitment domain family, member 9 [Source:HGNC Symbol;Acc:16391]
Coordinates
chr9:139265293-139265913:-
Coord C1 exon
chr9:139265776-139265913
Coord A exon
chr9:139265598-139265775
Coord C2 exon
chr9:139265293-139265597
Length
178 bp
Sequences
Splice sites
5' ss Seq
TCGGTGAGT
5' ss Score
11.11
3' ss Seq
GACACTGGCCTGGCCCACAGACG
3' ss Score
6.63
Exon sequences
Seq C1 exon
GTGTGCTCCTGGACATCCTGCAGCGGACCGGCCACAAGGGCTACGTGGCCTTCCTCGAGAGCCTGGAGCTCTACTACCCGCAGCTGTACAAGAAGGTCACAGGCAAGGAGCCGGCCCGCGTCTTCTCCATGATCATCG
Seq A exon
GTGAGTGACGGGGGAGGCGGGGCCGACAGGGGAGGCGCTGGCGGGGAGCGGGCAGTGGTGTTGGGTCCTCTGCCTGGCCCCCATCCCTAGGAGCCCTGAGCTCCTGCCACAGCGCAGGGCGTGATGGAGCTGGGCCACCGGGGAACACGGCACCATCTGACACTGGCCTGGCCCACAG
Seq C2 exon
ACGCGTCCGGGGAGTCAGGCCTGACTCAGCTGCTGATGACTGAGGTCATGAAGCTGCAGAAGAAGGTGCAGGACCTGACCGCGCTGCTGAGCTCCAAAGATGACTTCATCAAGGAGCTGCGGGTGAAGGACAGCCTGCTGCGCAAGCACCAGGAGCGTGTGCAGAGGCTCAAGGAGGAGTGCGAGGCCGGCAGCCGCGAGCTCAAGCGCTGCAAGGAGGAGAACTACGACCTGGCCATGCGCCTGGCGCACCAGAGTGAGGAGAAGGGCGCCGCGCTCATGCGGAACCGTGACCTGCAGCTGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000187796-CARD9:NM_052813:3
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.039
Domain overlap (PFAM):
C1:
PF0061916=CARD=PD(40.2=74.5)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCGCGTCTTCTCCATGATCAT
R:
GTAGTTCTCCTCCTTGCAGCG
Band lengths:
250-428
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- 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)