MmuINT0029131 @ mm10
Intron Retention
Gene
ENSMUSG00000026928 | Card9
Description
caspase recruitment domain family, member 9 [Source:MGI Symbol;Acc:MGI:2685628]
Coordinates
chr2:26358814-26359559:-
Coord C1 exon
chr2:26359364-26359559
Coord A exon
chr2:26358952-26359363
Coord C2 exon
chr2:26358814-26358951
Length
412 bp
Sequences
Splice sites
5' ss Seq
TGGGTGAGG
5' ss Score
6.74
3' ss Seq
ACTCTGTCTTCCACCTGAAGGTG
3' ss Score
8.96
Exon sequences
Seq C1 exon
CCTACAGAGGACATGTCAGACTATGAGAATGACGACGAGTGCTGGAGCACCCTGGAGAGCTTCCGGGTGAAGCTCATCTCTGTCATTGACCCCTCCCGGATCACACCCTATCTACGCCAGTGCAAAGTCCTGAACCCCGATGATGAGGAGCAGGTGCTCAGTGACCCCAACCTGGTCATCCGCAAGCGGAAAGTGG
Seq A exon
GTGAGGACTGCTCCCACACCAGCAGGCTCTAGCCCTGCATGACCCCCATAAGACACCCAGCCAGAGGCCACTCCATGCTCTCTTCACTGCCCTGGCCTTGTCCCCACTCAGCTCCATCCCCGTGTAGGATATATGAGTGAGAGACTCCTCCCCTCTTGTCCTGTCTACCTGCTGTTGCCCAGTGGAGGAAGGGGAGTCCCCACCACTGTTCAGGCCCTGCCTGAGACAGCCACCAGAGGGAAGGCAGCACCCTGTCCCACCTAGACTTGAGACCTGCAGGGCGCCTTATTCAATGGCCCAGAAGGAAGGGGGTTGCTAGAGCTTGGGATGTCTACCCAGAGTAATCATCCTACCCATCTCCAAGAGCCTCCACCCGCCAGCCCTTGGCCTTGACTCTGTCTTCCACCTGAAG
Seq C2 exon
GTGTGCTCCTGGACATCCTGCAGCGGACAGGCCACAAGGGCTACGTGGCTTTCCTCGAGAGCCTGGAGCTCTACTACCCTCAGTTATACCGGAAAGTCACTGGCAAGGAGCCAGCACGCGTCTTCTCCATGATCATTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026928:ENSMUST00000028294:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0061916=CARD=PU(58.6=82.3)
A:
NA
C2:
PF0061916=CARD=PD(40.2=74.5)
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:
ACAGAGGACATGTCAGACTATGAGA
R:
TGATCATGGAGAAGACGCGTG
Band lengths:
328-740
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Ribosome-engaged transcriptomes of neuronal types
- Neural differentiation time course
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types