MmuINT0029139 @ mm10
Intron Retention
Gene
ENSMUSG00000026928 | Card9
Description
caspase recruitment domain family, member 9 [Source:MGI Symbol;Acc:MGI:2685628]
Coordinates
chr2:26354830-26355524:-
Coord C1 exon
chr2:26355333-26355524
Coord A exon
chr2:26354872-26355332
Coord C2 exon
chr2:26354830-26354871
Length
461 bp
Sequences
Splice sites
5' ss Seq
CTGGTAGGC
5' ss Score
6.99
3' ss Seq
TCCCTTTTCTGTGGCCACAGAGC
3' ss Score
8.48
Exon sequences
Seq C1 exon
GCTATGGCCTCCAGGGAAGAGCTGCATGCACAGTGTACCCAAAGCTTTCAGGACAAAGATAAGCTTCGAAAGCTGGTTCGAGAGCTGGGTGAGAAGGCAGATGAGCTGCAGCTACAGCTGTTCCAGACGGAGAGCCGATTACTGGCCGCCGAGGGCAGACTCAAGCAGCAGCAATTGGACATGCTCATCCTG
Seq A exon
GTAGGCCTCTGTGTCTGCTGTCGCCAGGGTGGGCTGGGCAGTGAGAGAGCTGGGGAGGATGTGAAGTCAAGGCAGGATTCCAAGAGGAACCATCAGCCTGGAAGCAGCCCTATCACTAACCTGCCATGACTGCTGCCCTGCTTGTGGCCTCGGAAAATGCCTGGCCTTCCTAAATCCCAGTTTTCCTCATTAGAGCTCTTCATGGCGAAGTGACAGCCACAGATGTAACTCAAGGTTATCCACACCACTCCAATGACTGCAGCCTTGACCAAGGAGTAACCTTCAGGTGGCTTGGAGTGTAGTGTTAAGAAAGACATATTCTGGGCATATCTAGAAACATGTGCAGGGCCTCCCTAGAGGATGGAGCCTGGATGGGGCTCTTACCATGCCCTACACACCCCATACCCAGGTGCTTGGAACCCCTACAGCCCACTGACCAACTCCCTTTTCTGTGGCCACAG
Seq C2 exon
AGCTCTGACTTGGAAGACAGTTCACCCAGGAACTCCCAGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026928:ENSMUST00000028294:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.102 A=NA C2=0.857
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:
CTATGGCCTCCAGGGAAGAGC
R:
CTGGGAGTTCCTGGGTGAACT
Band lengths:
230-691
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