MmuINT0068497 @ mm10
Intron Retention
Gene
ENSMUSG00000026815 | Gfi1b
Description
growth factor independent 1B [Source:MGI Symbol;Acc:MGI:1276578]
Coordinates
chr2:28614755-28615397:-
Coord C1 exon
chr2:28615277-28615397
Coord A exon
chr2:28614893-28615276
Coord C2 exon
chr2:28614755-28614892
Length
384 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGT
5' ss Score
10.1
3' ss Seq
TGGGTCTTGTCTCCTCACAGTGG
3' ss Score
8.77
Exon sequences
Seq C1 exon
GTGTGGCGTGCACGCAGAAAAATGCCACGGTCCTTTCTAGTGAAGAGTAAGAAGGCACACACTTACCACCAGCCCCGGGCACAGGGTGATGAGCTGGTCTGGCCTCCTGCTGTAATTCCTG
Seq A exon
GTGAGTCTGAGCTTAGGCTATATGGCCCACCTCATGCCTGCTTGGCACTGTCTTGATGATGCTGTGGCATTTCTTCTGTATCTAACTGTCACTGAATGAATGAATGGACAAGTGAATAAATGAATGAATGAAATAAATACTCATCTCCTCTAGCCTTTGGAGTTGAGGGAGCATCGGACTCAGAGCCTGGAAAGGACTATGGCTCCAGTTGAGATCTGAAGTCAGGGTGCTCTGGGTTTCCCCCACCTCTGCCTGTTCTGAACAGAGGTGTCAGCAGCAGCAGGCTGGTGTCCCTGGGTCCCCTCTCCATGATATGGTACCCCTTGCTCTCTGAGGGCATTCCAGAGCTTCTGGTGGTGACTCTTGGGTCTTGTCTCCTCACAG
Seq C2 exon
TGGCAAAAGAGCATAGCCAGAGTGCCAGCCCTCTTCTCAGCACACCGCTTCCAAGCCAGACCTTGGACTGGAACACAATCAAACAGGAGCGGGAGATGTTGCTGAACCAGAGCCTTCCCAAGATGGCCTCAGCCCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026815:ENSMUST00000028156:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.706 A=NA C2=0.681
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTGCACGCAGAAAAATGCCAC
R:
GCTGAGGCCATCTTGGGAAG
Band lengths:
247-631
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