MmuINT0081824 @ mm10
Intron Retention
Gene
ENSMUSG00000032178 | Ilf3
Description
interleukin enhancer binding factor 3 [Source:MGI Symbol;Acc:MGI:1339973]
Coordinates
chr9:21387700-21388753:+
Coord C1 exon
chr9:21387700-21387797
Coord A exon
chr9:21387798-21388523
Coord C2 exon
chr9:21388524-21388753
Length
726 bp
Sequences
Splice sites
5' ss Seq
ATGGTAAGA
5' ss Score
9.48
3' ss Seq
CGTAGTTTTCGCATTTCCAGCGT
3' ss Score
5.99
Exon sequences
Seq C1 exon
ATAGTTGAAGTATTGGTAACACCAAGGAACTGTCACAATTTGAAAAGATAAGCCAAGACTGATTTCCAGACACTACAAGAAAAAAGGAGGGGAAAATG
Seq A exon
GTAAGACATTTTTTTCTTTGGTTATCAACACTTTTCCTTCACTTATGTACAGAGACAGCATGTCCCCAGAGCATTTGATGCTGTTAGCATTTTATCTTAGATATTTGAATTCTCTAAAATAATTACGTGTCACGATGTGAATACAGTAGTCCCCCCTTAGCTGTGTTCTCAATTCCCGCGGTTTCAGTTACCTGCGGTCCACCGCAGTCTGAAAATATTAAGTGGAAATTTCCAGAAAGAAAAAATTGATAAGTTTTAAATTGTGCACCGTCCTGATGCCTGCGTCATTCACCTCACTTCATCTCATCACGTAGGCATTGTATCATCATCACTTCATCACAAGAAGAAGAAGGGTGAGTAGGACGATGCTACTTGGAGACAACATTCACATTCCGTCCTGTCTAAGCCTTTCCTGTGCCCGATTGACCGATTAAACTACTGTACCTGTGTGTGTAGAGGCCAAACCCAGACCGTATTGGTTTTGGTGATGTCCGCGGTTTAAGGCTTCCATTGGGGTCTTGGAATGTGTACCCCGCGGATAAGGGGGGACTACTGTAGTATAGCGATACGTAGAGTGCCCCATTCCTGCTGCAGCCTGGAGAGTCTCCTCTCAGGTCCTGGGTCACGTTCCCATAGACTGTCTTCTGAAGGATGGAATGGTACTGAGGTGAGGGTGGGCTGCTGGCTGTCCTTGCATCATTTTTAGCGTAGTTTTCGCATTTCCAG
Seq C2 exon
CGTCCCATGAGAATTTTTGTGAATGATGATCGCCACGTGATGGCAAAGCATTCTTCAGTGTACCCAACACAAGAGGAGCTGGAGGCTGTACAGAACATGGTGTCCCATACTGAGCGGGCCCTGAAGGCTGTCTCTGACTGGATTGATGAGCAGGAGAAAGGCAACAGCGAGCTCTCTGAGGCAGAAAATATGGACACACCCCCAGACGATGAGAGCAAAGAAGGGGCTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000032178:ENSMUST00000067646:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.672
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGTAACACCAAGGAACTGTCACA
R:
GCCCCTTCTTTGCTCTCATCG
Band lengths:
311-1037
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