MmuINT0071495 @ mm9
Intron Retention
Gene
ENSMUSG00000073402 | Gm8909
Description
predicted gene 8909 [Source:MGI Symbol;Acc:MGI:3704134]
Coordinates
chr17:36304378-36305236:-
Coord C1 exon
chr17:36304871-36305236
Coord A exon
chr17:36304654-36304870
Coord C2 exon
chr17:36304378-36304653
Length
217 bp
Sequences
Splice sites
5' ss Seq
GCGGTGAGT
5' ss Score
10.49
3' ss Seq
TTCACACTGGGATCCCGCAGGCT
3' ss Score
6.31
Exon sequences
Seq C1 exon
CCACCGAAGGTCCCGGGAGGAGGTCGGGGTCTCACCGCGAGCCGCCCCCAGGCCCACACTCGATGCGGTATTTCACCACCGCAGTGTCCCGGCCCGGCCCACACTCGATGCGGTATTTCGAGACCGCCGTGTCCCGGCCCGGCCTCGGGGAGCCCTGGTTCATCTCTGTCGGCTACGTGGACGACACGCAGTTCGTGCGCTTCGACGGCGACGCGGAGAATCCGAGGATGGAGCCGCGGGCGCCCTGGATGGAGCAGGAGGGGCCGGAGTATTGGGAGCGGGAGACACAGATCGCCAAGGGCCATGAGCAGGGTTTCCAAGGGAGCCTGAGGAACCTGCTCCACTACTACAACCAGAGCGCGGGCG
Seq A exon
GTGAGTGACTCCGGGTCGGAGGTCACGACTTCGCCAGGTCCCGAGACAGGGGACAGAGATCTCCAGTCCCAAGTCTAGGTTCGGGAGCAGAACCAACCCCGGACCGGTTTTCCTTTCACTTTGGAGGAGTCCCCAGGTGGGCGGGGCGGGGAGGGCGGGGCGGAGCGGGTGAGCGGGGATGGGCGGGTGTGCCGGGGTTCACACTGGGATCCCGCAG
Seq C2 exon
GCTCTCACACATTTCAGAGGATGTACGGCTGTGACCTGGGGTCGGACGGGCGCCTCCTCCGCGGGTACTGGCAGTTCGCTTACGACGGCAGCGATTACATCGCCCTGAACCAAGACCTGAAAACGTGGACGGCGGCGGACTTGGCGGCGCAGATCACTCGACGCAGGTGGGAGCAGGGTGGTGTTGCAGAGACGCTCAGGGCCTACCTGGAGGACCCGTGCCTGGAGTGGCTCCGCAGATACCTGGAGCTCGGGAAGGAGACGCTGCTGCGCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000073402-Gm8909:NM_001081032:2
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.453 A=NA C2=0.011
Domain overlap (PFAM):
C1:
PF0012913=MHC_I=PU(50.3=94.7)
A:
NA
C2:
PF0012913=MHC_I=PD(49.2=94.6)
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:
CCTGAGGAACCTGCTCCACTA
R:
TTCCCGAGCTCCAGGTATCTG
Band lengths:
297-514
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: