MmuINT0068492 @ mm9
Intron Retention
Gene
ENSMUSG00000029275 | Gfi1
Description
growth factor independent 1 [Source:MGI Symbol;Acc:MGI:103170]
Coordinates
chr5:108150139-108150883:-
Coord C1 exon
chr5:108150395-108150883
Coord A exon
chr5:108150277-108150394
Coord C2 exon
chr5:108150139-108150276
Length
118 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGG
5' ss Score
9.16
3' ss Seq
GGCCCCCCACTCGCCCTCAGGTG
3' ss Score
8.32
Exon sequences
Seq C1 exon
CGTCGGAGAAGTCACTGTGCCGCTCTCTGGACGAAGCCCAGCCCTACACGCTGCCTTTCAAGCCCTATGCATGGAGCGGTCTTGCTGGGTCTGACCTGCGGCACCTGGTGCAGAGCTATCGGCAGTGCAGCGCGCTGGAGCGCAGCGCGGGCCTGAGCCTCTTCTGCGAGCGCGGCTCGGAGCCGGGCCGCCCGGCAGCGCGCTACGGCCCCGAGCAGGCTGCGGGCGGAGCCGGTGCGGGACAGCCAGGGAGACTGCGGGGTCGCCGGGGGCGCCACCAGCGCTGCGGGCCTGGGGCTCTACGGCGACTTCGCGCCTGCGGCGGCCGGGCTGTACGAGCGGCCGAGCACAGCAGCAGGCCGGCTGTACCAAGATCATGGCCACGAGCTGCACGCGGACAAGAGCGTGGGCGTCAAGGTGGAGTCGGAGCTGCTTTGCACCCGTCTGCTGCTGGGCGGCGGCTCCTACAAATGCATCAAATGCAGCAAG
Seq A exon
GTGAGGCTCGCGCGCGCCTGGCCTCATCAGCCCTGTGTCCCCAGTCCGTGACCCTCCAGCATGCGCACCCCGCGACCCCCCTCAGCGGCCTTCTCCCTGGCCCCCCACTCGCCCTCAG
Seq C2 exon
GTGTTCTCCACACCGCACGGGCTGGAGGTGCACGTGCGCCGGTCCCACAGCGGCACAAGACCCTTTGCGTGCGAGATGTGCGGCAAGACCTTCGGGCACGCGGTGAGCCTGGAGCAACACAAGGCAGTGCACTCCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000029275-Gfi1:NM_010278:3
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
NonCoding
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=NA
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF138941=zf-C2H2_4=WD(100=95.2),PF0013017=C1_1=PU(10.9=28.6)
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGCTGTACCAAGATCATGGCC
R:
CTTGTGTTGCTCCAGGCTCAC
Band lengths:
251-369
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: