MmuINT0081816 @ mm9
Intron Retention
Gene
ENSMUSG00000032178 | Ilf3
Description
interleukin enhancer binding factor 3 [Source:MGI Symbol;Acc:MGI:1339973]
Coordinates
chr9:21200661-21202112:+
Coord C1 exon
chr9:21200661-21200771
Coord A exon
chr9:21200772-21201912
Coord C2 exon
chr9:21201913-21202112
Length
1141 bp
Sequences
Splice sites
5' ss Seq
AAGGTACGA
5' ss Score
9.78
3' ss Seq
TTGCCTTGTTCTCTTCTTAGAGG
3' ss Score
9
Exon sequences
Seq C1 exon
TTCAAATTCCTCCCAGCACCACCTATGCTATCACACCCATGAAACGCCCTATGGAAGAGGATGGGGAGGAGAAGTCTCCCAGCAAGAAGAAAAAGAAGATCCAGAAGAAAG
Seq A exon
GTACGAGTGTGTGCCCTGGTTTGTGGATGCTGTCCTTCCTTCCTTCCTTCCTGCCCCAGTGACTGTGCACCTGGAAGTTGTTAGGAATGTGCTTTTAGTTTTTGCTTTGCTTTAAAAAAAAATATTCAAAGCCTTTATTACTTTATTCACTCATTCATTGTGAGTTTTTTGTTTGTTTGTTTGTTTTGTTTGAGGCGGGATTTCTCTGTAGCCCTTGAATTCAGAGGTCTGGCCTGCCTCTGCCTCCTGAGGGCTGGGATGAAAGACATTACCACCACTGGCCAGCTTTTTTTTTTTTTTTTCCGGGAGTGGTGGCGCATGCCTTTAATCTCAGCAGAGGCAGGTGGATTTCTGAGTTCGAGGCCAGCCTGGTCTACAGAGTGAGTTCCAGGACAGCCAGGGCTACACAGAGAAACCCTGTCTTGAAAAACCAAAAAAAAAAAATTTTTTTTTAATCTCCATATATTTAAAAATGTTTTGTATGGATGTGAATATGCATGTGTCATGGTGTTCTTGTGGCGGTTAGAGGACAAACTTGGGTGTGTGCCTTCCACCTTGTTTTAGACAAGATGTCTTTATTGTTCAGTGCTGATTATTAGGTAATTAATTCCCCATGGTAATTCCCATGTACTCCCTGGGAATTGTTGGATTTTCATCTCCTGTCTAGCCACGGGAATGCAGAGATGATAGACAGGCTGTCTCGTCTGCCTTTTTGTGAGTTCTCAGGATCTGAACTCTAAGGCCTTCAATCACAACAGTAGGCTCTTTGGCCTCTCAGCTCCTCCCAGCTCTGAATGGCGTTTTTTTGGAAACATGGTGTCTGTTAATGTAGCTATCCTTACCCTTGTCCTGGCTGTGGAGACCAGGCTGCTCTCGATGCTGATGTACTGTAAACACTTAATATCTTGTCTGGTGACCCACTGTCTCTAATCTCAGCACCCATGATGCTAAGGTGAAAAGACAGGACTTGAAGTCTAAGCTGAGATACAGAGTGAGAGACTTCCCCCAGAACCAGTGACAGGCCCAGATGGAGAGATGCTCCTATGAGTCACACCTGCCACAGCGGGTTCTAACAGTCTCTCGGCTTTGCCTTTTCTGGGCTTGGGAAGTTTGATCCCATCTTGCCTTGTTCTCTTCTTAG
Seq C2 exon
AGGAGAAGGCTGATCCTCCTCAAGCTATGAATGCCCTGATGAGGTTAAATCAGCTGAAGCCAGGGCTGCAGTACAAGCTGATCTCCCAGACAGGCCCTGTTCATGCTCCCATCTTCACCATGTCTGTGGAGGTAGACGGCAGTAACTTCGAGGCCTCGGGGCCATCTAAAAAGACTGCCAAGCTTCATGTAGCTGTGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000032178-Ilf3:NM_010561:12
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=0.776
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0003520=dsrm=PU(90.6=86.6)
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:
TCAAATTCCTCCCAGCACCAC
R:
GCTACATGAAGCTTGGCAGTCT
Band lengths:
303-1444
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: