MmuINT0055797 @ mm9
Intron Retention
Gene
ENSMUSG00000063600 | Egfem1
Description
EGF-like and EMI domain containing 1 [Source:MGI Symbol;Acc:MGI:1922990]
Coordinates
chr3:29556052-29561421:+
Coord C1 exon
chr3:29556052-29556189
Coord A exon
chr3:29556190-29561298
Coord C2 exon
chr3:29561299-29561421
Length
5109 bp
Sequences
Splice sites
5' ss Seq
TAGGTAATT
5' ss Score
7.27
3' ss Seq
AAATGTCCTCTGCCCTTCAGACT
3' ss Score
6.44
Exon sequences
Seq C1 exon
GAATTGAATTAGAAATTGTCAATATCTGTGAGAAGAACAATGGCGGCTGTTCTCATCACTGCGAGCCTGCAATTGGTGGAGCCCACTGTTCCTGTAACCACGGACATCAACTGGATACCGATGGGAAAACATGTATAG
Seq A exon
GTAATTGTTGGCAATTGCCATCTTCATGCAAAGTTTCTCTGGACCCATTTAGCACTTTCATGCTAAAACACATTGTTACATCGTGAGCCACACCACAACCCTCAGACTGAGAGGTGCTTTTAACTATATCTCTGACTACTTATATATAGCAAAGACAAGCAAATACTTGGATACTTACCTTAAAATTAAGAACATTGAAACACTCTTATTGAGATACGCAGGGCTATTAACTATGTAAATAGAAATTATTGTTTTGCTTCAGAAAAATATATCCTAAGGTCTACCTAAACTATTAAATTTGTATGCCAACATTAGACCCAACTGTGAGTCCCGAGTCTTCAAGCAGAAATGAAATCAACGCCCATTATTTTCCAGTTTGGTAATGATTTGGAAGAATATCCAGTTGGGGAATGGCAACTTTTACTAAAAGAAAAGTGTAGAAGATAATGACTTTGGACATCCCAGGTCTAACCCATCTTTTTTGTTTGCTCGTTTATGTATATTTCTGTGTCCATGTCCATGTGAGGGCCGGTAACTACTAAGTCCAGAAGAGAGAGTCAGATGCCATGGAACTAGAGTTTCTAGAGATTGTAAGCTGCCTGATACTGATGCTGTGAAGAGAACTTGGTTCTACCACAAGAATACATGTTCTTACCACGTAGCCATTAGAATTACTATCAGTTATATCATTTGCAACAATAAGGAGAGCAGTCCCAATTTGGCGTTCCCTCATTAAAACATACTTCATGGTGATCTCCCAGTGTGTCTCTGCTAAGCAGCAGGGGAGGAGCACTACTGTGCTCTGGCTCTGAAACACTCTCTTAACTAGTGACACTTCTTCATCCTAGAGTGGAAATACTGTGTTTACTGATTTTATTTAATGATGACACTTGCTTCCTCCCTTTAAAGTAATAGTACAAATTCAAAAGAACTCCCTTTTCACTGCTCACCATTCAACAAGATGGGAAATAGTGCAAAGCACTGAGAGAGGTGACCGAATCACTACGTTACATTGTTTTGTTTTGTGCTTTAGCATTATAAGAGAGTAAATTGCATGGAATGTATAGTATTCTACTTTCACCAAAGTATTAAACCTAAACAATGTCATTGCATGTGTTTCTTGATCCAATAATGTCTTCTACACTGCTATGAGTCTATTGTGCCCAACATATCAAAACCAATTACTTTCCTTGGGTCTCTTGCAATGAAAAATATACTACATTTTCTGTCTTACTAATACTTAAATTTATGAAAAAATATGTTTTTCTCTCTTCCTCACTTTTTTCTCTTATTCCTCCCTCCCTCCCTTCCTTCTTTCCTTCCTTTTTCCCTCCTCATTTTGTTCTTCATATGAGTACTAAATAGAGAAAACTGGAAATGTTTGTTTGTTTGTTTATCATTCATTCATTCAGCTATTTTTGTGGGGGTTGGGGGATAGAATTTCTCTGTGTAGTCCTAGCATCCTGGAACTCTCTATACAGACCAGGCTGGCATTGAACCCAAATATCTGTCTGAACCTAACTCCCAAGTTTTAGGGATTAAACACATGAGCAACCACCACAAGGTGATCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTGTGTGTGTGTGTGTGTATGTATGTATGTATGTATGTATGTATGTATGTATGTATTTTAAATTTGATATCTTTAGTCTTTGAAAAGTACAATTCAAGAAACTTTTCTTATTTACAGCTAGAAAATAGTATAGCATCTGCCAGGGTCAGAATGCAGGAAACTGCATATTTATGAGATTTCTGCAGTCAACAAGGCAATGTTAGACTGCTTATGGTTCGTTTTGTTTCATTTTCATTTCAAGAATAAAATTGCTTATTTCTGAAGGCCAGATATTCAGTAGGGCAAAGGTAATAATTTGCTTAGACCATGAGAAGGTTGCTCTTCTTGTTACTGGTTACTTTTATAGAACCAACCATGAGTTTTATCATATGTTAAGATAAGGTATTTTTTAAAGATGAGAATGTATAAAAGACAATACAGCTAACATGCCAGTGGTTAACCTTGCCCAAGTGCAAAAGGTCTCATCCTGAAACATCGAGAGATGTGAGATGTGTAAAATGGCCTTGGAGTGACAATCATATAAAAAGTAGTTGTCTGACCTCATTGAGGAATTCCAAGTTAAGCATATGGCTAGTTTCTAGGGGGTATGTCTTAGTTTAGGAGTTTTTAGGAGTGTACAGAAGTGTTCACTTCTGTACTGTGTCTTCTAGTTTTGACTAGGGCTAGATTTTCCTGGTAAGCAGTTCATTCCATCACTACTGCTCTGTGACATTCCGTGTAACTGCAAAAGCCATAAAGTATGATCAAAAGAGGAACCAGACAAGCAACAACTTCATCAGCAATATGAAAAGAAATAAAGACATTCAGAAATCAGGTGGTATAAAGGTTGAGTGGCAGTATTCCCTAGAAAGGACTTGAGGTGAGGATGTAGGCAGTAAGCTCCTTGATCTGTGAGTGTGAAACCCTGAATTCTGATCCCAAGAACCCACATAAAAAGCTGGGCCTGATATCTCAGAACTCAGAGCTGGAGACAAGAGAATACCTCTGGCTTGCTGGCCAGCTGATCTAGCAAATAAAAGATCCTTTTATAAAACAGAGTGTGGAAGACATTGAGAAATACTTACAATATATGTACACTCTCCCCATGATATGCATGTGCACTCCTCACACACATGACATGTATGTATACCCATATTCACACATGACATACATATATATCCATACCCACACATGACATGCATGTACATCATACCCACACAATGTATGCATTACACCATACCCTCACATAACATACATATATACCCATACCCACACATTGCATGCATGTATACCATATCCACACATGATATTCATGTATATCATACCCACACATAGCACAACATGTATACCATACCCACACATGACATGTATGTACACCCATACCAACACATGACATACATGTACATCTATATCTACACATGGTGTGATGGTTTTCTATATGCTTGGCCCAAAGTGTAGCCTTGTTGGAGTAGGTGTGTCAATGTGGGTGTAGGCTTTAATACCCTCATCCTAGCTGCCTGGAAGTGAATCTCCTCATAGCAGCCTTCAGTTGAAGACATAGAACTCTCAGCTCTGCCTGCACCATGCCTGCCTGGATGCTGTTATACTCCCAATTTGATGATATTGGACTGAATCTCCAAACCCATAAGCCAGCCCCAACTACATGTTGCTTTTATAAGAGTTGCCTTGGTGTCTGTCCACAGCAGTAAAACCCTAACTAAAACACATGGTCTGCATGTATACCATATCCATACATGGTCTGCATGTACCCCATACCCACACATGGCCTGTATGTATACCATACCCACACATAACATGCATCTACACCATACCCACACATAACATACATGTACAACATACCCACACATGGCATGCATATACACCATATCCACACCTACATGTTTTGTACTGTAGAAGCAGGAAGTTTGTGCTGAGCTTTTAAACAAAAGTCAGTGTGCAGGAGAAAGCTAAGAAATCTTCCCAGAGCAATGTAAATGGCAAGATGACCTAAAATAAACCCAAACAATAGTAATCAGACATATTTTCAGTATTGTGGGAGGAGCCTGTATCCCTTGCTAGTTGAGACCTATATGTATATATGCATGTATGTATGTGTGTATGTATGTATGTTATGTATGTCGGTAAGAAAGCCTATTTTTAAATCAAAGGGGAATTAAAAATATCTGAAATTTTAAAAAATCATGGAGAGTAATATCTTTTTATGAAATAAAACTGGTTCATCTTTTGTTTTTTTTTTATCGTCTGTATTCACATTGTTTAATCTAAAGGCCAGAGAAAGGCTTAATATGACAAAAACTAATATCTGTCATTTTCTGAGCAGAGCTCCTTGGGACATTTTGCAGGAGAAAGAAAGCATTGTCCCCAGATGACCTTCATTTAGATAGTTTCTGCTGACCCCTCGCCTTGACTGACTGACTGCATTTCCTTTCCTTCCAGTCTCTTGGCTTCATTTCCTTGAGTCTACTGACTCTTCCGAGGTTAATTGAGACATTGACCTCTTTGTACCTGTGTAGTCCTGGAGCAATAGGATTCTGAAAGCTCAGCAGTGACAGCCACCCAGACTAACAGCTCAACACACAGAGGCTTGAATTGAGCTGGGGCAGAAAGCCAACACCTTCACCATGAAATCCCCTGCTGCCCAGAGCAAGGAAAATAGTGTCTGTTGAGACTCTTTCACTGTTTTGCTTAGCATGACCCTTCAAAACTTGGGCCAAGTACATTGTTGTTTGGCTGAATGGTTTCAACCCGACAGACACTGGAGCCTTTTGATTTTCCGTAGGCCAGCTCTATGTTAGGAACAGCCATTCATGGCTGTAGAATTCTGGAATGATAGTGCTATATAGACAACTGCACATCTGACAGGACATTTCAAGGGAATGACTTCACAGCTGTAACAAAACCCCATAGATCTCACCCATCCCATAGCATATATCATTGCCAGGCTTACTCCAGAATTTAATAGACACTATGTGAGGTATGTGTGTCTCTTTCCTTCTCACAGGCATACAGTCCCACCTCTCTCCCTAGTTGAGTTCAAGGGGGATATTGACTTGGAAACACTCTTGATTACACAGATCTTGAAGGAGAAGCCCACTTTGGGGTCTCTCTCTGAAGCTGTCAAACATTACTAAATGGAATTCTTTGGCTCTTCCTTCTCAATGCTGTCTTTTTGTGCTAAGGGTTCTATTTATTCAGTCATATTTCTTTTTAAACTGGAAAGGTAGCAGAGATCTCTCTTTTCCTATACTTATAAATGCATTTGAAGATTATTTACATTCTTTTAAAATAAATAACAGACATACAAAGAGCTTGCAAGAAATGGGAACCCAGAATAGGTATCATTATTTTGTGTGATCATTTCTTCAGTCTCATTATGTGACCAGAGTAGTGGGAAATGGTTAATCAAACAGTTTTCATTTAGAAGTGAGTCTTCTCAGAGGGAGCTTCAGCAGTTTTGTTGGATTCTGTTTTCCTGCAGTAACACAAATGTCCTCTGCCCTTCAG
Seq C2 exon
ACTTTGATGAATGTGAGAGCGGAGAAGCCTGCTGTGCCCAACTCTGCATCAACTACTTAGGAGGCTATGAGTGCAGCTGTGAGGAAGGCTTTCAGATCAGTTCGGATGGTTGTGGATGTGATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000063600-Egfem1:NM_029412:9
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF146701=FXa_inhibition=WD(100=76.6),PF0764510=EGF_CA=PU(0.1=0.0)
A:
NA
C2:
PF0764510=EGF_CA=WD(100=95.2)
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:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
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: