MmuINT0098141 @ mm10
Intron Retention
Gene
ENSMUSG00000030605 | Mfge8
Description
milk fat globule-EGF factor 8 protein [Source:MGI Symbol;Acc:MGI:102768]
Coordinates
chr7:79134652-79136841:-
Coord C1 exon
chr7:79136657-79136841
Coord A exon
chr7:79134802-79136656
Coord C2 exon
chr7:79134652-79134801
Length
1855 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGA
5' ss Score
9.22
3' ss Seq
AATGTTGTTTTTTCCTGTAGGTT
3' ss Score
11.43
Exon sequences
Seq C1 exon
GATGTTCTGAGCCCCTGGGCCTGAAGAATAACACAATTCCTGACAGCCAGATGTCAGCCTCCAGCAGCTACAAGACATGGAACCTGCGTGCTTTTGGCTGGTACCCCCACTTGGGAAGGCTGGATAATCAGGGCAAGATCAATGCCTGGACGGCTCAGAGCAACAGTGCCAAGGAATGGCTGCAG
Seq A exon
GTGAGAGCGGTGGGATCTGTGAGCCTGCCCAGCCCTGTCTGCTCTCCAAGGGATCTCCTGAAAAGCCTTGGTTTTCTTTGTTTCTTTTTCTTTTAACCAGGCCACCCCTTTTCTCTTGATCCTGCTTTGGTATGCTTACACACACACACACACATACACACACACACACACACACACACTCACACACGTACATGAACATGAACATGAACATGCACACACACATACACACACACACACATGCACATACACATACACACATACTCACAGGCACATACACATATACATCTACACAATACACATACACACCCACTCACACACACATACACACACTTACAGACACAAACACACATACAACTACATACACATACATACACACACACACTCACACATATACATACATATGTACATACACACACACTCACACATACACCTACACTTACTTACACACACATGCACACATACATACTCACACGTACACACACTCACAGACACACATAAACACTCACACACACATATATATATATTTACACACACATATTTACACACACATACACACACACACACACACACACACACACACACACACACACACACACACTCGGGAGTAGGACCACCCCATCAGCTGCCACAGAGTGTCAAGGCTTGCCTGTGGGCAGCAGGGCAGGATGGCAGAGGGCACTCTAGGACTAAACCACTTCAGCAAAGCACATGTGTTCGCCCGCTCAGTGTAACTGGGAAATCTCAGGAGAGAATGGAGAATGCAGATGGGGAAACTGAGTCCTGGAAGATTGTGTGGTGCTTACCTGCTGGTTGTGGGTGAGCTGAGCTTATAGCCTAGATCTGGGGACTGCCTGTCTAGGGGTCAGTTTCAAGGATAGGGCAAGGACAAACCTGGGCTGGAGGTGCTCAGTCGGAGTTGAGTTCATCAAGAGCCACCTGCTCCAGGCAGCCTGACAGGTTTCAGAAGCAATTCTCACTCATATAGGCTGTGGTGTCTTGGCCTGTCCATCATACCCCAACATACATCTGATGCAGGAGCTGGCAGGGTCGGCCAAGGCCTGGAACTTCTGAAATGCACTTCACCGAGCTTTACCGTGCTGGAGTTCGTGGGTGTCAAAGTGCATTATTTATGTGTCTTTATTTTTTCCTTCACATTGGAGATAGAACTCTGGGTTTTGGGCATTCCAGACCAGTGCTGTGCCACTGAACTATATATTCTGTTCTTGGTATTTTGAGACAGGGTGTTGCTATGTAGCCAGGCTGGACTTCCTCTCCATTCTCAGCCTCCCGAGTTATAGGGTTTTAGGTGAGCCACCATACATGGCTTTATGCTCATTTTATGGAAGAGTGTCTTAGAGTTACTATTGCAGGGATGAAACACCATGACCAAAAAGGAGTTGGGGAGGAAAAGGCTTATTCAGCTTACACTTCCATATCACTGTTCATCATTGAAGGGAGTCAGGGCAGGAACTCAAATGGGGCAGGAGCCTGGAGGCAGGAGCTGATGCTGAGGCCCTGGAGGAATGCTGCTTATTGGCTTGCTCCACATGGCTTGCTCGGCTGCTTTCTTATAGAACTCAGGGCTACCAGCCCAGGGATGGCTCCACCCACAGTAGTCTGGGCCCTCCCCCACAAATCACCAATTGAGAAAATGCTTACAGCTGAACCTTATAGAGAGGCATTTTTTTTTCTCACTTGAGGGTCCCTCCTTTCAGATAACTCTAGCTTGTGTCAAGTTGACATAGGACTAGCCAGCACAAGGAGGAAATGCGCTAGCAGGCCATCCCCAGTGTGTCTGTCTTTACACCTTCTTGAAGAAGGCTCCAAGCTAGAACAATGTTGTTTTTTCCTGTAG
Seq C2 exon
GTTGACCTGGGCACTCAGAGGCAAGTGACAGGAATCATCACCCAGGGGGCCCGTGACTTTGGCCACATCCAGTATGTGGCGTCCTACAAGGTAGCCCACAGTGATGATGGTGTGCAGTGGACTGTATATGAGGAGCAAGGAAGCAGCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000030605:ENSMUST00000032825:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.015 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0075420=F5_F8_type_C=PU(32.6=72.6)
A:
NA
C2:
PF0075420=F5_F8_type_C=FE(35.5=100)
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:
GATGTTCTGAGCCCCTGGG
R:
CTTGCTGCTTCCTTGCTCCTC
Band lengths:
335-2190
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