MmuINT0149674 @ mm10
Intron Retention
Gene
ENSMUSG00000047793 | Sned1
Description
sushi, nidogen and EGF-like domains 1 [Source:MGI Symbol;Acc:MGI:3045960]
Coordinates
chr1:93265279-93271267:+
Coord C1 exon
chr1:93265279-93265392
Coord A exon
chr1:93265393-93271141
Coord C2 exon
chr1:93271142-93271267
Length
5749 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGCT
5' ss Score
6.52
3' ss Seq
CACCACTGTCTTCCTTGCAGGAA
3' ss Score
10.98
Exon sequences
Seq C1 exon
ATGTGGATGAATGCAGTTCTGACCCATGCCAGAATGGGGGATCATGTGTTGACCTGGTTGGAAACTACAGCTGTATTTGTGTGGAGCCCTTCGAGGGACCTCAGTGTGAGACAG
Seq A exon
GTAGCTGACCCACAGTCCTCCACAGTGGAGTGGCTACCACTTTATCTCAACCTTTCCTCCCCCTCTTCTCAACCTTCTTCACCTCCCAGCCCTTCCAGAGCCACCAACTGAGGAGAGCAAGAAGCAACTCAGCAATATGAGGCTGGTAGGCCCTTTCCTTTCTGGACCTTAGTCTCCATCTATAACAATCAGGGACAGGTGACAGCTTTCCCAAGGCCCTTTTCTCAACTCAGAGGAGTCCAGGCTTTTTAGCACCTTCCCTTTCCTGGCACACAAATAGCTATGGGGAACAGAGAGAAACCTGGTCTTTGCCACATAGGACCATATATGTTCTCTTCTACACTATCTTCTGTCGTAAATGTTGGCTTTGCTTTGGTTGATCAATGACAAAGCCAACCAGAGATTGCAAAGCCTGGGATAAAAGCTCTGCAGTATCTGTACCCTTAAGCCTGGCCGACTTTGTCTACAACTGTGGACATGGTTGAAACTGAGCAGGTCAATAGGGTTCACAGTTTACCCAGATGATGGACACTGTCAGATGCCACAGCAAGAGAACAGGACAGGCCCTGGTGAAGGCCTGAGAGCAGAGAATGGGTGTGGCACCCTCACTTCTTTTTTTTTTTTTTTTTTTTTTTTTTTAAGATTTATTTATTTATTATATGTAAGTACACTGTAGCTGTCTTCAGACACTCCAGAAGAGGGCGTCAGATCTCGTTATGGATGGTTGTGAGCCACCATGTGGTTGCTGGGATTTGAACTTCGGACCTTCGGAAGAGCAGTCGGGTGCTCTTACCCACTGAGCCATCTCACCAGCCCCGCACCCTCACTTCTTGACTGTATTCAAGTCCCCACTGTACATCTCATAAGTACCTTGCCTGAGTAGTTATTGAAACATCAATGTGCTTCACTAAATTTGTATCAGGAAACAGAGAAGTGGTTTCAAAAGAGTTTTGTAGAGAAATCATATTTTGTGCCAAATAACATTGCAAGTGGAAATGAGTAATACAAATAACAGAACAGACCAGGTACGGCTGCGTGCCTGTGTCCCAGCTACTTATAGGCTGAGGCTGGGGGATTATTTAAAATCAAGAGTTAAAATATCAGCTAGGGCAACATAATGAGACCCCTTTAAAGGGGGAGGGAAGATGAAAATACCATAATGGACATTTCCACCTACTAGAGGTGTGTGCTCACTAAACTTACAGGTATAAACACGGAACCCAACCACTAGAAGTTGGCTAGAATTAGATATTTTAAAAAACGGATTATCTAATCTGCTGCTAGTCAGCTGCCCTGAAAGTTCCCTTTTCATAAACCACAGTTAGAGACCCAGACAAAATCTACAAAATTCCTGTCTTGAGCCATTAGACCTTGTAGCACAGAGATATCAACTTGAGAGAAAGGGGATCCAGAACAAACTCTGTCCTTGTTCCTCACAACCTGCTTGGGCCCAGAGTGTACAGTGCTTTGAACTGAAGAAAAATTCCAACTCAACAGCCGCTAAGATTGGGAGGTGGGAGACAGTGCGCTGGAGGTACTAGTGGAGGAAAGGGGCAGCAGGAGGCCCCTCTGCCGTGGCCTGGCAGATCTGGGTCAGGGGATTGATTGGGCTGGAAAAGAACCATTGGAAATCAGGAATCCCTGCAACTCCTAGGGCTCAAACAGGAGGACTGGGGGTAAATCCAAGCAGCTGTGGGGAGATAATAATTTTAAAAAATAATTAAAATATAACCTACAGACAGATGAAAGAATTATCATATATAAATACGTAATTACTGTAAATAGGCTGCATATTCTCAGGACTGCTAAGGGGGAATCATGAGAAGAGGAAGATATTTTTAAAATTCCTAACAGTAAAAACTGTGACTATTTAGAATATGGTGGGTAGTAGTAACAGCTGGCAAAACACCAAAGAAACAAAAACCAATGAGCTGGAAGAGAAACAGAAACAGCATGCAGCACAGAGAGTAAGACTGGAGGAAGTAATTGAGCCCCAGGGGCTGTAAAATAACAGTGAACATCTGGCACGTGGCCCTGAAGTTTGGGAAGGAAGCAGCAGTGGGGGAGAGAGTTACACAAACAGAAGGAGTAGCCACACAGTTCCCAAATTTAATGAAAACTACACCCAATGTTTTCAAGAAACGCATGAGAAAAACCAGAGTCACACTATGACCACTCCTCTAGACATCAGCGATAAAGAATTCATCTTCAAAGCATTTTGTGGGAGGTAAGGGGAGCTGAAGAGAAGGCTCAGGGGCTGGGAGATAAATCCCCTGCTGCTCTTGTAGAGGACTCGAGTAATGGGGTGATCAGCCCAGCCGTGTCTACAGCTCTAGGAGATCCGGAACCCTCTTCCGGCCCCTGGCACCTGTACTAATGTGGCATATACATACCCATAAATAAAAATAAACCATCTTTTAAAAACCTAAGTCAGCAAAAGAAAGGAACCCTTCACATCCAGGGAAGCAAGGGCAGCAATCAGTGCTCACAAGGAACCATGCAAGCCCAGAGTAAAGTCATCAGTGTAGTGTTACAGGCCACACAGGACTTATAAAAGTAACTTTGTTGTTGTTGTTGTTGTTGTTGTTGTTGTTGTTGTTGTTGTTTTTCAAGACAGGGTTTCTCTGTGTAGCCCTGGTTGTTCTGGAACTCACTTTGTAGACCAGGCTGGCTTCGAACTCAGAAATCCGCCTGCCTCTGCATCCCAAGTGCTGGGATTAAAGGCGTGCGCCACCACTGCCCGGCAAAAGTAACTTTTATTCACCTGATATAATTGGTATCTCAGAGGATTGCTGCTAAGTAAGCTCACCCTTTCTAGTTCTTTTTGAATTCTGCCTGGCTGGTTCGACTCAGACTGATTCAATCTGGCTTCTCTCAGCTTCTCTCTGGACTGCTCTGCCATCCTCAAACTAACTGACAATTTGCTCTAATCTTCCAGCTCCTCCTTAGTCTCTGGCTTAGTCAACTGCCTCTGCTGACCTGCACTGAAGTGCACAAACTCACAAATGACCTCAATTCCTCTGCACTGCACTGACTCCCAACAGACTCCTCTCTCCCTGTAATGCACTTAAATAGCTTCTCTTCCCTGTGCTGTTCTCGAGAGGGATGAGCGTATCCTAGCTCTGACTCATCCTGTCAAATCTTTCTCTGATTCATCACTTTGTCTGTCTCTGAATTAGATGTCACTTTCAAACATGGCTGCTTCCTTCTGCAAACTAACTTTATCTTCACTGTTAGGGATTTAAGATGTGTGCTAAGGGCATAACTGTATTCCAGGCAGAGGAATTAAAGATGAGTGGTCTCTTGCCAGAGCAGCCATGTTGCTGGGTTAAAATTCCTCTACAAGAACTATATTCAGAATTTAGGTGCAGTAAAGACCTGCTCATATAGCATTCAGCATCTTTCTTACAAAATGTGTGAAAGGAACAGGATAGTAGTGGCAGAGGTAGGCAGATCTCTGGATTGGAGGCCAGCCTGGTTTACAGAGCACATTCTAGGACAGCCAGGGCTACACAGAGAAACACTGTTGAAAGAAAGAAAGAAAAGGAAAAGGAAAAGGAAAGGAGGAAGGAAAGAAGGAAGGAAAAGAAAAAAAGAAAAAAGATAAAGAAAATTGTTAAAGGAAATTCTTTACATAGAACAAATGGTCCAAGACAAAAATACAGACAATCTATATGGAAAACCAAAATGGGAGAAATGGCCAATGTATGGGTCAAACTTCTAGATCTCCTTTAAAATGAAGCAATAGCACAGGGCTTATAACATCTGGGGGAAATTATGACACTAGTGTATATAAACTTGTTGTGAGATATCACCACAAACTTAGTTCACTAGCACAAAAATACTAACCTAGAGCCAGGCGTTGGTGGCACACACACTTAATCCCAGCACTCAGGAGGCAAAGGCAGGTGGATTTCGGAGTTCGAGGCCAGCCTGGTCTACAGAGTGAGTTCCAGGACAGCCAGGGCTACACAGAGAGACCCTGCCTCTAAAACAAAACAAAACAAAACAAAAACTAACCTAGTATGGAAACAGGGCAGCAACACACACACAGTTTTGGCAGGAATAAAAAAAATTCTGCTACCCATTAAACAATGGTAGCTTTTTATGCTAATCAGACATTCAGACATTTATAAATCTGACCCAGCAATCCTAATCCTATTCTTGGTATTAGTTCTAAAGACATAAAAAATGGTATATTTATAATCTCCAAAACCTGTGGATGGATCTGCAAGCTGGTGCCTTCATACAATGGTGCACCACTCAGTCTCAAACAGGACTAGACACACACACACACACACACACACACACACACACACACAGATGGATCGCAGATATATTATGCTGAGGGAAGACAGCTGGACTCAAAAAGACTTCATACTGTATGGCTCCATTCATATGATACTGTTGCAAAGTGGAACTACAAGGATGAACTCATTGGTGTTGGTAGTTACCAGTTGCTCATGAGACTGAAGTCATAGAGTGCAGATGTCCTTAGAGGTGACAGGATGTTCTATGCTATGATTCTGATTGGGATTCCATGAGTTTATACATGTGTTAAGCTGCTTATAAGTATATACCAAGTGAAAGTTGATTTTACTGTATAACAGTTTACAAAAAAAAAAAAAATCAAAGTACATGGAAAATTACTACCTGGGAAAAAAAAAGTAGTAGGCTGTCCAGAGAAGGCTGAGTGGCTGTGCTGACAACAGCTGATGCACTCAGAGTAAGAAATACCAGTGGGAAGGGAGGGTATTATTTTACAATGGCGAGGAGGTCAATTCATCAAGAAGACAAACCTAGCCGGGAGGTAGTGGTGCACGCCTTTAATCCTAGCACTTGGGAGACAGAGACAGGTGGATTTCTGAGTTCGAGGCCAACCTGGTCTACAGAGTAAGTTCCAGGACAGCCAGGGCTATACAGAGAAACCCTGTCTCGGGAAAAGCAAAAAAAAAAAACAAAAACAAAAACAAAAACAAAAACAAAAACAAACAACAACAAAAAAAGAATTCAAACCTAAAGTTACTATCACCTGCTGACATCCTCAAATGTGTCCAAAAAACATGAGCTAAAAGCCAATAGATTACAAAACAAATAGGGCCATAATTTGGGGGAGATTTCAGTAATTCATAGAGCACACAGACAGAACTGGTTAAAGCTGGAAGACTTGCACCTAGCCTGATGGACATCTGAGAGGCATTCATTTTTCTTTCCCCTAGTATTCATGAAGTGTCACTGTGACTGGCCATGGTGTGGGTCATAAAATAAAAACAGGTGACTTAAAACCACAGCAGTTAAATTAGTAATCACTGAGAAATCTTAACTATTTAACCAACAGGAATGCTTGAACAACGATTCATTTACTTATTTTATGTATGTACACTGTCACTCTCTTCAGACACACTAGCAGAGAGCATCAGATCCCATTACAGATGGTTATGGACCACCATTTGGTTGCTGGGAATTGAACTCAGGAGCTCTAGAAGAGCAGTCAGTGCTCTTAACCACTGAGCCATCTCTCCAGCCCCAGTGCTGATTTTTGTGTACCCAAAAAGGAGCCTGGGCCAAGCCAGCTCCCAGAAGACTTGATTCTGACTTGTTTCAGACAAGATTCTGACTCAAATCCCTCTTGGCATTGAGAAGAGCTGTGGGAACTCACATGGGGACCAGCTTCTCTGTTTTCACCAGTCTGCTCTTGGCCCAGCATTCTCCTCTCTCAACTGGCTACTCACCACTGTCTTCCTTGCAG
Seq C2 exon
GAAGCTACCTGGTGCCTTCACCCTGCCTCTCCAACCCCTGCCAGAACGGGGGCACCTGTGTGGATGCTGATGAGGGATACGTGTGTGAATGCCCTGAAGGCTTCATGGGCTTGGACTGCAGAGAGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000047793:ENSMUST00000062202:8
Average complexity
IR
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:
PF0000822=EGF=WD(100=79.5)
A:
NA
C2:
PF0000822=EGF=WD(100=72.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping 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
- 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