MmuINT0081829 @ mm10
Intron Retention
Gene
ENSMUSG00000032178 | Ilf3
Description
interleukin enhancer binding factor 3 [Source:MGI Symbol;Acc:MGI:1339973]
Coordinates
chr9:21392295-21393802:+
Coord C1 exon
chr9:21392295-21392442
Coord A exon
chr9:21392443-21393710
Coord C2 exon
chr9:21393711-21393802
Length
1268 bp
Sequences
Splice sites
5' ss Seq
GAGGTAGGG
5' ss Score
7.81
3' ss Seq
CTTATTCCATCCATGAATAGAAA
3' ss Score
5.53
Exon sequences
Seq C1 exon
ACTGTAACAGAAGACAAGTATGAAATACTCCAGTCTGTGGATGATGCTGCGATTGTGATAAAAAACACAAAAGAGCCCCCCTTGTCCTTGACCATCCATCTGACCTCCCCTGTTGTCAGAGAAGAAATGGAGAAAGTATTAGCTGGAG
Seq A exon
GTAGGGAGGCCGAGAGAGGCCAACAGAACATTGCAGACTTGGTGTTCCCTCTTGCTCAAATGTGCTATTCAGTTTTGGAGTGCTCTGATTAGAGGGTGTCAGTGTAGCTCTGACTGCCTTTACTCTAAATTCATGTCTCCCCTCGGCCTTGTATTTTTGGGAGTTTGACCCAACAGTGGCACTAAAAGTGAGTAGCACTTTGCATAGGGAGTGTACCGTTTTGCTTCTCTTATTCCTCGAATGGTCTGGAATCTCCTTGTTAAACTTGTTTCCCTCTTGGAAAAAAGTGTGTCCCTGAGAATCTTACAGTGTTGCAGTGGTTAGCAGCAACCAGATGGCTTCTGTAAGAACGGCACGCAGGAATAGTGATCAGCTGGCCCTGCGGCACAGTCAGGGTGTTTTGTTTGGCCTCTGCCTGTGGGACTCTGAGCTTTAGAGAGGCCAGGAGCAGCAGCAGAGTTTTGGATAAGGTTTTAAACTATTGTGCTGTCTTCCAGCCCAGACTTTGCACTTCAGATTCTAAGTTAAAATGCATAGTCCACAATTCAATGATCTCCCTGGGGCCCTCCTGGGCCTGCTGTCCGGCCTTATCCAAATCCTTGATAGCTGGCAGAGCCAAACGACAGCCTAGTTGTACCGCAGTGGAGGTTGACTTGTTGATTTCCCTTTGGCACACGTATCTGATGCCAGTTAGCAAAGCCCTCTTAGCTTATCCACTCAGGGACGCTGGACCTTTGACCAACAGGACTCTCTCTGTCAAGGCCTGGGGCTAGGGCAGTCCCGCCTGGTGGGCGGAGGTGGTCCCCTGCGCTACAGGTGGATGCCTGTTTGTGAGAAGCAGAGAGGGAGTTCATTTCCACTCCCCCACCTCTTTTTTTGTTTTTGTTTTTTGTTTTTTGTTTTGTTTTGTTTTTGTTTTTCCTATTGTAAATTCCAGCCTAGCTAATTTGTGGGGATGTCTACTAGAAGATAGGGTTAGCCTATCTTTTCCCTTCCCTACCGATTGTTCCTTTTAGAGTAACTTTTCTTTTTTGATTTTGGTTTTTGTTTCTGTGGTTTAAATTTGGGAGAGGGCCTCCCAATTTTTCTGACTTCCTCTCAGAGCAGAGCTGATGGCACTTTAGCCTCTCCTTCCCTTGTCCAGGGTGGACACAAATTGAGATTGTGGGAGACTCAGCTGCCCTTTAGGAAGCTGCCACATCCCCTTTGTACCTGACAGAACCCCTTGGTCAAACTGTGCCTTGTCTTCTTATTCCATCCATGAATAG
Seq C2 exon
AAACGCTATCAGTCAACGATCCCCCGGACGTTCTGGACAGGCAGAAATGCCTTGCTGCCTTGGCGTCCCTCCGACACGCCAAGTGGTTCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000032178:ENSMUST00000067646:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.010 A=NA C2=0.027
Domain overlap (PFAM):
C1:
PF075289=DZF=PD(35.7=92.6)
A:
NA
C2:
PF075289=DZF=FE(12.0=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACAGAAGACAAGTATGAAATACTCCA
R:
CTGGAACCACTTGGCGTGTC
Band lengths:
234-1502
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