MmuINT0070226 @ mm9
Intron Retention
Gene
ENSMUSG00000089736 | Gm14378
Description
predicted gene 14378 [Source:MGI Symbol;Acc:MGI:3833469]
Coordinates
chr8:4250467-4250921:+
Coord C1 exon
chr8:4250467-4250625
Coord A exon
chr8:4250626-4250848
Coord C2 exon
chr8:4250849-4250921
Length
223 bp
Sequences
Splice sites
5' ss Seq
CAGGTACTG
5' ss Score
9.04
3' ss Seq
TAGCTAGCTTCTTCTTTCAGCAC
3' ss Score
4.33
Exon sequences
Seq C1 exon
GGCCATCCAAGAGTCTCCCAGGCAGGTCGGTACACCCGGAGCCACCCGCTCCAGCCCCTGCAGCACTGGAGCCTGCACCGGTGGTGGCATTGGTGTTGGCGGCCTTCGTGCTGGGTGCTGCGCTGGCCGCTGGGCTTGGTCTCGTCTGCGCACACTCAG
Seq A exon
GTACTGACTTCTGCTCCGCCAGAACCCCACACCTATTTCCACACGTTCAGACAGTCTAGTAGTCTACCTGCCCCACCCCCAACCCCGTGAGCCCATATCCCTGAACCTGCCTCCAGGATCTGGCCCTTAGGGCTGGTACACTTGTAGCAGCTCCCACCAGGGGGCGCGCTTAATCTGGCGCAGGGCACAGGCAACTCCTATTCTAGCTAGCTTCTTCTTTCAG
Seq C2 exon
CACCCCCACCCCCAGGCCCGCCTCCTAGAGCTTCTCTCAGCGGCCCCCAGCTCCAGAGACCCCCAGTAGGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000089736-Gm14378:NM_001195258:5
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.537 A=NA C2=1.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATCCAAGAGTCTCCCAGGCAG
R:
CTGCCTACTGGGGGTCTCTG
Band lengths:
228-451
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
Other AS DBs: