HsaINT0027754 @ hg19
Intron Retention
Gene
ENSG00000187796 | CARD9
Description
caspase recruitment domain family, member 9 [Source:HGNC Symbol;Acc:16391]
Coordinates
chr9:139266347-139268133:-
Coord C1 exon
chr9:139267984-139268133
Coord A exon
chr9:139266547-139267983
Coord C2 exon
chr9:139266347-139266546
Length
1437 bp
Sequences
Splice sites
5' ss Seq
CAGGTGGGT
5' ss Score
8.56
3' ss Seq
CACTGCCCCACACTCCCCAGCCT
3' ss Score
4.51
Exon sequences
Seq C1 exon
GACTGTGGAGTTAAGCAGAACCCATCAGGAAGTGCACAGGCGTCCGGCGTGCTCCTCCCTCCCTGCAGCCCCGGGCAGCATCTCCCAGAGGCTCCGCGGCCCAGGCTCCTGGTGTGTCTGCAGTGCAGGTGGCTCCTGGAAGACCCTCAG
Seq A exon
GTGGGTGGGTCTGGTGCTTTCTGAAAGGTGGCCAGGAAGGTTGGCGTTGGCCTAGTTCAGGATCCTGGCACTGATCCCCCAGAGCAGCCTGAGGCTTCCCACAGGCAGCCAGGCAGCCTCCGCCATGCGGCCCCGTCCCTTTCACGGCCCCTGGGCGGAGATGTGTTCATTTCAGTGGAATTACGGTGGCAGATGGGACCCTGCATTTCAAGCTGGGGAAGCAGGAAAGGGGCCCAGTGTTCCCAGGACTGTCTACCGTGTGGCCAGTGTTTTTATTCAGTCCCTTGTCTGTCAAAACTGTCCTGAATGGGGTGACAAAGTGCAGCGGGAAGTTGAGAAATGCCTCAAAAGACCAAGCCTGGGGCAACTATGTCTCCAGGAGCAGTGACCCAGCTCCTCTGGGCTGGAAACCAGCGTTTCCCAGCGGGGCTGGAGGCTGTCTGAGGACCACGTGGCTGCTCCCAGCCTTGCCGCAGTCCCAGTCTCAGAGGGAGTGGCTTTCAGCGGCTGAGGCCCCCACCATGCTGGCAGAAAGGGACAGCAGTGGCTGGTCCCAACATGGGTAGTTCTGTTGCAGCCACTGGGATGGGGGCCGGGCCTCATCTGGGGCAGGAGAAGAGTCCAGGGATTCACTGGTGCCCGGCACCTCAACCTGGAGAAAACACCGCAGCAGCACTCCTGGCCAGCCAAGGGCAACACTGACAGCCCCTCCCAGGGTTGCGGGGCCGGCAGGGGGTGACAGAGACACGCTCCTGTGGGCAGCTCTTCCCGGCCAGTGCAGCGACCCCGCAGCTGCAGCAGGGCTGGGTGGCCACTCTTGCATCATCAGCAGCCGGCCGTGGAGGAGGGAGGGCACAGCCAGGGATGTGAGCAGGCGTCGGTCAGGGGAATGAGGAAGTCCCACAAGAACCGGCTCCCCCAGCTGCTGTGCTGGTGGGAGGGCCACTGGCCAACCTGCTCTCACCCAGCTTGGGCTGGCCATAGTGCCAGGCAGTTGCCCTCAGCTCCTCTGCCCATTCCAGCCATGGAGGTGGCTAACCTTGCAGGCTCCAGGGCGTGATGGGAGTGTCCAGGAGGCAGAGGCCAGAGGGGGTCATGCTGTAGGGGGAGTTCCTCTCTCAGACCCCATCTGTGCCTCCCCCGCTGCGTATCTGGGTGACATGGATGCCAACGGGCAGGAGCAAGGGCTGGGAAAGGCTGCGGAGGGGCCCTCGGCTGGTCTGGTGGGGAGCGGGGTCACTGTGTCTCTGCTGCCTCCCTGGGGGATCCAGCGTGGGGATGGGACATGGAGCTGGGCACCTCTCCTGGATGCCCCTGGGCTGATCCCCCTCGATGCCCTGACGAGAGCCCTGGCCCAGCGTCTGAGAAGGAGTGGGAGCTGGGCCCGGGTGGGGGCAGGAGCCGGCATCGCTCTCAGCACTGCCCCACACTCCCCAG
Seq C2 exon
CCTGCCTGCTGAGGCCATGTCGGACTACGAGAACGATGACGAGTGCTGGAGCGTCCTGGAGGGCTTCCGGGTGACGCTCACCTCGGTCATCGACCCCTCACGCATCACACCTTACCTGCGGCAGTGCAAGGTCCTGAACCCCGATGATGAGGAGCAGGTGCTCAGCGACCCCAACCTGGTCATCCGCAAACGGAAAGTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000187796-CARD9:NM_052813:1
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=0.000
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
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
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:
GACTGTGGAGTTAAGCAGAACCC
R:
CGTTTGCGGATGACCAGGTT
Band lengths:
342-1779
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)