MmuINT0081818 @ mm9
Intron Retention
Gene
ENSMUSG00000032178 | Ilf3
Description
interleukin enhancer binding factor 3 [Source:MGI Symbol;Acc:MGI:1339973]
Coordinates
chr9:21202413-21203694:+
Coord C1 exon
chr9:21202413-21202580
Coord A exon
chr9:21202581-21203568
Coord C2 exon
chr9:21203569-21203694
Length
988 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGC
5' ss Score
8.7
3' ss Seq
TCCCTGAGGGCGTCAAATAGCAG
3' ss Score
-2.74
Exon sequences
Seq C1 exon
GTGTTACAGGACATGGGCTTGCCAACAGGCGCTGAAGGCAGAGACTCCAGCAAGGGGGAAGACTCCGCTGAGGAGTCAGATGGGAAGCCAGCAATAGTGGCCCCACCCCCTGTGGTGGAAGCTGTCTCCAACCCCAGTTCTGTCTTCCCTTCAGATGCCACTACTGAG
Seq A exon
GTGAGCCTCTGGTGGGTGCTAGAGATGGCGCTGCATGCATGATGGGTGCTAGAAATAACCTATTGCCAGGACAGAGCAGGGGGTCACTAGTCCTTAAATGCAAAACAGAGTCAGGCTTGTCCATCCTGTGGCCCAGTGTGAAATCCCGAAATCTCTTCACACAGTCTGAGATTATTTTGCAGTTTTTAGTTTTTTGTAACTGGGATGGATACCTGGTTCTCAGGCTTAGCCCCCCCCCTCTTAATTTTTCTTTTATGTGTGTGTTATCTGTACAGCACATGTGTGCAGTGCCCGCATCCCTTAGAACTGAATTTTAAAAAGGTTATGAGCCACCATGTAGGTGCTAGGAACTGAATGTGGGTCCCCTGGAGAACAGCCAGTACTTTAAAACTCTTGAGTTAGTTTAGTCCCTGGACCTTTTCCTCTCTCTTTAACATAATAAGCACCATGGCAATTTCATTTTATTATTATAATCTTTCTCTTAGATCCATTATTGTGTGTGTACACATATGAGGACCTGAGCATCCATATAGCATATGTTGAGTGGTCATAGCTTGTAGAAGTCTGTTTTCTACTGTGTGAGTTCCAGAGACTGATTTGGATCATCAGGCTTTGTGGCACAAGCATCTTTACCCATTGAACTATCTTGCTTGTCCCTGTGTGAAACCTTGATATATGGTAATTAATGTGTTGCAGTATCAAAAGGTTGAACTTAATCTGCCAGATCTTATGCAAGTCACCTGCACAGGAAGCTATGGGAGTCATTCGGCCCAGAACCCTGTTTTTCTGGGAGCCAGAAGGACATGGGTGGAGCTGGTGTTTCACTGAGACCTATCAGCTGGCATAGAATAGGGGACCCAGATCCAGTTAGGGGTTCAAATGAGAGGGCTTAGCCAGTGACTGTTTCCCTTCTGGGTGGTGGAGTGCCCAAATCTAATTTAGTGGGATTTCTTTGTTTGTTTGTGCTTTCCCTGAGGGCGTCAAATAG
Seq C2 exon
CAGGGACCGATTTTGACTAAGCATGGCAAGAACCCTGTTATGGAGCTTAATGAGAAGAGACGTGGCCTCAAATATGAGCTCATTTCTGAGACGGGGGGCAGCCACGACAAAAGGTTTGTTATGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000032178-Ilf3:NM_010561:14
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.964 A=NA C2=0.905
Domain overlap (PFAM):
C1:
PF0003520=dsrm=PD(6.2=7.1)
A:
NA
C2:
PF0003520=dsrm=PU(50.8=76.2)
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:
GTGTTACAGGACATGGGCTTG
R:
CAAACCTTTTGTCGTGGCTGC
Band lengths:
286-1274
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: