MmuINT0029138 @ mm10
Intron Retention
Gene
ENSMUSG00000026928 | Card9
Description
caspase recruitment domain family, member 9 [Source:MGI Symbol;Acc:MGI:2685628]
Coordinates
chr2:26355333-26356883:-
Coord C1 exon
chr2:26356758-26356883
Coord A exon
chr2:26355525-26356757
Coord C2 exon
chr2:26355333-26355524
Length
1233 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGGT
5' ss Score
10.28
3' ss Seq
GCCCTCTGCTATTCCTACAGGCT
3' ss Score
9.37
Exon sequences
Seq C1 exon
TGCACGGAAGAAAAGGAGATGTTCGAGCTGCAGTGCCTGGCCTTGCGCAAGGATGCCAAGATGTACAAGGACCGTATCGAGGCTATCCTGCTGCAGATGGAGGAGGTCTCCATTGAGAGGGACCAG
Seq A exon
GTAGGTGCCACACTTGTGTTCAGAAACGGAGAACCAGGAGTGTTGGGGTATTGGTGCGGCAGACACTGGAGCAGTAGTCAAAGTGTTTTGTTTTGTTTTGTTTTTTTTATTTATGCTCAGGGTAACTTGGCAGTGTTGGAAGACAGAACCCGGGACTGCTTGTACAAATGCATCAAAGTCTACCTTATTCAAAGGAGGAGCTTATGCGGGAGGAGAACACAGCAGTCCCTGTGGTGGGGGTGGGGGTGGGGTAAGGAGGTGGGAGACTTCAGTAGGGAGAGGAAGCTGCTAGGTGCATAGGCTGTGGGTAGGGAGCATTTGGTACAAGAACCTGTGGTGGCTCCCGGGCAGAGGCAGTAGTAGCAACTCACACCTGCAATCCCAGCAGTTGGAGGTTGAGACAAAATAATTACTGTGAATTTAAGGGCAGCCTGATTTACCATGAATTCCAAGCCAGTTTGGGGTCCAATGTGAGACCCTGTCTCAAAAAGCCACCACTAACAATAACAAAAGCGGTAGCAGCTGAGCCATGTTTGGTAGTACATGGCAGTCCCAGCATGCTGGTCCCCGGATTTAGAGGTAAAGACAGGAGAGTCAGAGATTCAAGGCCAACCTCAGCTAACAGTAAATAGGAGGCCACCTTGGGATAATGAAACTGTCTTCCAAGAAACAAAAGAAAAAAACCTTTGTGTTCATTTAAGAACAGCCATGAATCCTGGTTTGTTTGTTTTTTTTTTTGTTTGTTTGTTTTTGTTTTGTTTTTTAATGTCAAGCTGCATCCAGAATTTATAAAATATGTCACATAGGTGGGACAGAAACACCCACTGGCTATCTGCTGGGGATGTAGGACTTCTCAGTTGGGCTTCCTATGAACTACTGAGCATTAATCACGGGTTTTTTTGGCTGCTTCTCTGAAGTGTTTTGTTTTGTTGTCTGAGACAGTGTCTCATGTAATCCAATCTTGCCTTCAACTCAATATATGTGCAAAGATGGCCTTAAACTATTGATCCCACTTCTGCCTCCCCAGTGCTAAGAATCTGGTCATTTCCAACTCCGCCCAGGGTTTGTTCATGTACACTGAGAGCCCTGACTGCTTTGAGAATCCCTCCAGTTCAGCAGTTCCAGCCATACACCAGGGTGGTTGATGTCCAGCCAGGACCTGAACTGCCAAATGAGAGCCAAGAGCATCAACCAGGTCCTTTGCTGAGGGTGTGCCCTCTGCTATTCCTACAG
Seq C2 exon
GCTATGGCCTCCAGGGAAGAGCTGCATGCACAGTGTACCCAAAGCTTTCAGGACAAAGATAAGCTTCGAAAGCTGGTTCGAGAGCTGGGTGAGAAGGCAGATGAGCTGCAGCTACAGCTGTTCCAGACGGAGAGCCGATTACTGGCCGCCGAGGGCAGACTCAAGCAGCAGCAATTGGACATGCTCATCCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026928:ENSMUST00000028294:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.024 A=NA C2=0.102
Domain overlap (PFAM):
C1:
NO
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:
TGCACGGAAGAAAAGGAGATGT
R:
CAGGATGAGCATGTCCAATTGC
Band lengths:
318-1551
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