MmuINT0071499 @ mm9
Intron Retention
Gene
ENSMUSG00000073402 | Gm8909
Description
predicted gene 8909 [Source:MGI Symbol;Acc:MGI:3704134]
Coordinates
chr17:36301918-36302122:-
Coord C1 exon
chr17:36302090-36302122
Coord A exon
chr17:36301968-36302089
Coord C2 exon
chr17:36301918-36301967
Length
122 bp
Sequences
Splice sites
5' ss Seq
GAGGTAGGT
5' ss Score
9.65
3' ss Seq
TCTTCTTTCTTCTACTGCAGGCA
3' ss Score
11.15
Exon sequences
Seq C1 exon
GTGGAAAAGAAGAGAACTATGCTCTGGCTGGAG
Seq A exon
GTAGGTGTGGGAGAGAAGATTGTCTCTGAGACTCTTGGGGTTAAGGTAGAGCAAAGTTAGCCCATATTAGCTCCTCCAGCCTAACTGTCAGTCTCCTGAATGTCTTCTTTCTTCTACTGCAG
Seq C2 exon
GCAGCAACAGTGTCCAGGGCTCTGCCTTGTTTCTGGAGGCCTTCAGGTAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000073402-Gm8909:NM_001081032:6
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF063056=DUF1049=PD(13.5=41.7),PF066236=MHC_I_C=FE(42.3=100)
A:
NA
C2:
PF066236=MHC_I_C=PD(50.0=76.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTGGAAAAGAAGAGAACTATGCTCTG
R:
TACCTGAAGGCCTCCAGAAACA
Band lengths:
82-204
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: