MmuINT0068493 @ mm10
Intron Retention
Gene
ENSMUSG00000029275 | Gfi1
Description
growth factor independent 1 [Source:MGI Symbol;Acc:MGI:103170]
Coordinates
chr5:107720110-107721257:-
Coord C1 exon
chr5:107721120-107721257
Coord A exon
chr5:107720276-107721119
Coord C2 exon
chr5:107720110-107720275
Length
844 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGA
5' ss Score
10.77
3' ss Seq
TCTTCCTCTCTGCTCTGCAGGAA
3' ss Score
10.98
Exon sequences
Seq C1 exon
GTGTTCTCCACACCGCACGGGCTGGAGGTGCACGTGCGCCGGTCCCACAGCGGCACAAGACCCTTTGCGTGCGAGATGTGCGGCAAGACCTTCGGGCACGCGGTGAGCCTGGAGCAACACAAGGCAGTGCACTCCCAG
Seq A exon
GTAAGATCGGCGCTGGCGGCCTGACGCTGCACTGGGGACCTTTCAGCTTGTCCTCCGAATCGGCACCAGCCATTTTCCCACTGCCTCCCGGTGCCCCCTCTGCTTGCTCCTATTTGGGGGTGCAGAGAAACCTGGGTGACAGAAGTCCTGGAGTGTGCTGCAATCTTAGATTGCAGTGTCGCACCGCTGTGAGTCTCCAGCAGTGGAATTCTGTTGGAGATTTGTTGACATTTGCTGCTAATGCACTGACTTTACTGTTTATGTTCCCTTCATCCTTCCTGACTGGCAAGGGAGGGTCTCAGTTCATGCGCAGCGTCCAGTAGCGAATGCTGGTCATTCATTCATTCATTCATTCATTGCTTTATAACTTGCCTAAATCTAAGGCTTTAGGCACCTGAGAATCCTGTAGCACAGCAGGTCCTGTATGGTGGATTAAAGAGAGGGAGATAAGCAAAATACTACACAAGTGTCTGTGACAGCAGCCCATCTGGTCCAAACCCCACAGTGACTGGGGAGGAGGGGCAATCTAAGTGGCTGAGGTCCTGCTGAGGAGGGTGTCAATGGGTGTCAAAAATGCAGGGCGGAGCTACGCTTTTGTCCTGGGGTGTGGAGGGTTGTGGCTGTAAAGTGTTTTAGTAGTTAATCAGTAGGTGTTGAATGATGGGGTGGAGGGAGAGAGGAGAGGGTTTCTGGCTCTGGGAGATCAGTAGATGTTGGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGCACAAGCGCCAAGGAGGCTGCTGAAGGAGCGGCACATTTCTTCCTCCTCTCTTCCTCTCTGCTCTGCAG
Seq C2 exon
GAACGCAGCTTTGACTGTAAGATCTGTGGCAAGAGCTTCAAGAGGTCATCCACGCTGTCCACACATCTGCTCATTCACTCGGACACCCGGCCCTATCCCTGTCAGTACTGTGGCAAAAGATTCCACCAGAAGTCAGATATGAAGAAACACACCTTCATCCACACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000029275:ENSMUST00000159164:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.065 A=NA C2=0.107
Domain overlap (PFAM):
C1:
PF134651=zf-H2C2_2=WD(100=58.7)
A:
NA
C2:
PF0009621=zf-C2H2=WD(100=41.1),PF134651=zf-H2C2_2=PU(38.5=17.9)
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:
GTTCTCCACACCGCACGG
R:
CTGTGTGGATGAAGGTGTGTT
Band lengths:
302-1146
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