MmuINT0003447 @ mm10
Intron Retention
Gene
ENSMUSG00000043183 | Simc1
Description
SUMO-interacting motifs containing 1 [Source:MGI Symbol;Acc:MGI:2442599]
Coordinates
chr13:54523970-54528536:+
Coord C1 exon
chr13:54523970-54526672
Coord A exon
chr13:54526673-54528303
Coord C2 exon
chr13:54528304-54528536
Length
1631 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAGC
5' ss Score
9.85
3' ss Seq
CTATCTCTTTGTCTCTACAGAGC
3' ss Score
10.56
Exon sequences
Seq C1 exon
GACTTCATTGACTTAACTAGAGAAAACCGAGCAAGGACAAAAGACCGGAATGGACTCTGTGTGATTGATCTAACAAGAAATGAGGAAGAAAATAGGCCTATTGCCACTCTTGATTTGACTTTAGAACCTGTAGCTTCCTCTCAGAAGGAGCCAACCAGTCTTCAGACATGTACCAGTCTCTCGGGCAAAGAAGTGATGGAAGCCCATGAAGATAGAGGCTCTCAGCCTGCAGCACAGAGAATCATTAACAATGATCCTGTAGATTTGGATTTGCTAGAGGAAAACCTGTTTGAAGGTTCTCGACCCCCTACATCTATCAGCCAGGACTCTGTTTATCCACCAGAACCAAACTGTAGCTCAATCACATATAAAGGTGACCTCAGCTTCTTGACAAGCCTACAGCTCTCTTCAGATGTTAGCTCCTTCTCCTCCACAAGCAATCAGAGGGCCTCTTTGCCATGCCCACAGCAAGATGTGCCTTGTCAATCACAAGGCTTGCTATGCCCGCTACAGGCCTTATCATGCCCACAAACAGCTTCACCATGTCCACCACGAGCTTCCTCATGCCCACCACAAGCCCTGTCATGCCCACCTCAAGCTTTGTCATGCCCATCACAAACTTTACAGTGCCAACTCCAAGCTTTGCCTCAACCACCTCAAGAAGTGCCATGCTCTACCCAAAATGTACCGTGCCCTCAGCAGAATATGCCAAGCACACCTCAAGGCTTATCATGGCATCCTCGACACACCCTATACCCATATCAAGACACTCTGGGCCTACCTCAAGATGTTCCAGGCCGACCTCAAAACATGTCATATCCACAAGATGTGACACAACTGCAAGACATGCCATGGTCACTACATGACATGCCACTGTCACTACAAGATGTGTTACAGTCACTGCAAGATGTGCCACCATTGCTGGGAGATGTGCCGCCATCACCAGAAGTGATGCAGTTACCAGGATATGTGACACAGACATCAAGAGATGTGATTCAGTCACCGGCAGGTGTGACACAGTCACTAGGAAGTATGATGCAGTCACCAGGAAGTGTGACCCAGTCACTAAGAAGTGTGATGCAGTCATCAGGAAGTGTGACCCAGTCACTAAGAAGTGTGATGCAGTCATCAGGAAGTGTGACCCAGTCACTAAGAAGTGTGATGCAGTCATCAGGAAGTGTGATGCAGTCACCAGGAGGTGTGACACAGTCACTAAGAAGTGTGACGCAGTCACCAGGAGGTGTGATGCAGTCACCAGGAGGTGTAATGCAGTCACCAAGAGATGTGATGCAGTCACCAAGAGATGTGATGCAGTCACCAAGAGATGTGATGCAGTCACCAAGAGGTGTGACACAGTCACTAGGAAGTATGATGCAGTCACCAGGAGGTGTGATGCAGTCACTAAGAAGTGTAATGCAGTCATCAGGAGGTGTGACACAGTCACTAAGAAGTGTGATGCAGTCACCAGGAGGTGTGATGCAGTCACCAGGAGGTGTGACACAGTCACCAAGAGGTATGATTAAGTCACCAGGAATGATGCTGTCACCAGGAGATGTGATACAGTCACTAAACAGTGTGCCACAGTCATCAAGAGATAGGATGCAGTCAGCAGGACATGTGCCATCAGCATCAGGAGATGCAATACAATCACCAGGAGGTATGTCACCGACATCAAGAGATAGGATGCAGTCACCAGGAGGTGTGTCACTGGCAACAGAAGATTCGATACAGTTACCAGGAGGTGTGCCACTATCATCAGATGTGATACAGTCACAAGGAGGTGTGCCATTATCATCAAAAGATAGGATGCAGTCACCAGGAGGTGTGCCACCATCATCTGGAGATATGATACAGTCACAAGGAGGTGTGCCACAATCATTAGGAGATGCAATACAGTCAGCAGGAGGTGTGCCACAATCATCAGGAGATGCGATACAGTCACCAGGAGGTGTGTCACTGGCAACAGGAGATTCGATACAGTTACCAGGAGGCGTGCCACTATCATCGGGAGATGTGATACAGTCCCAAGGAGGTGTGCCACGGTCATCAAGGGATAGGATGCAGTCACCAGGAGGTGTGCCACCATCATCTGGAGGTGTGATACAGTCACCAGGAGGTGTGTCACCAGCATCAGGAGATGCAATACAGTCACCAGGAAGTGTGTTACCGGCATCAGGAGATGCAATACAGTCAGCAGGAGGTGTGTTACTGGCATCAGGAGATGCAATACAGTCACCAAGAAGTGTGCCACAGTCACCTAGCGGTACATTGCGGTCACCAGGCAATATGTCAGAGTCACTTGGAGATACACCAAACTTATCAGGAGATGTGTCAAACTCACCACAAGCATTATTGGACTTAGCAAGAGACAGGCCGAAGTCTTCCCCGAATGATGTGCAGAATCGTGATACTCCTATGGATATCTCAGCTTCATCCTCTTCAAGTTGCTCTGCTAACCCACAATCTCGACAGTCTGAATTTAAATTAGATAAAGTTCCTTGGCTCACTATCACAGATAGCTCAGCCAGGAGAGAGAAATCACTGCCACAGCTTGCCAACCCTGGGTCTGCTCAGATACAAGGACAAATACCACAAGTTGGGGTATACAATAGACCTTGCCTGCATAGACTGAAATACTTCTTACGGCCTCCAGTACATCATCTCTTCTTCCAGACATTAATACCAGATAAAGATACACGAGAG
Seq A exon
GTAAGCTAACATACTCACCCACATTGGGGGCTATTTCTTTGATAATGTTATCATGATTAGAGTCCATGCCAGAGAATGGGCCAAAGATAAACAAAATTTTTTTTTTAATTTTCCCCCAACTTGAGGGGGGAACTAGATCTATGTTCAGATCTCAGCCCACACTTAAAACCCAGTGTGCAAGTCACTTTTCTTTGTGAGCCTTGGCCTCCCTATTTGTAAAGCAGAGGTAAAAACACGACTCAGGGCACTGAATGAGGTGATGTGTGTGAAGTGCATGTTTGTGTCTGATTTATCATTGGCCTTCATCAAATTCTTGTCTTCCATTCCTTTATCCTCCTCTTCCTGAGTTCTATACATTTCCCATATCAACAGAGAAAAGACTCTTGTCACTTCAATGCCTCAAATGATTCCTTAGAATTTAGGAGTAGAAATTCAGTTTTAAAATTTTAATGAGATTACCATTTCCCATTTGTCGTCATTGACCTATGAGAACTTAATTAACTATATATAGACAGAAATGTTACAGTCTTTCACGTGAAACCTTTCTGCTATCCAGAACCTCACCCTCAACCATGACATTTGTTTAAAGTGGTTCCAGGCCAGCAGAGTGACTCAGGAGGCAATGGCACTTGCTGCCAAGCCTGACAACTTGTATTCTATGGCCCAGACCCACGTGATGGAAGGAGCCAACCAACTCCCATAAATTGTCCTCTGACGCTGCAGTTGTGGTATGCACTCATAAACACAAACACAGGAAATATGTAAGTCAAAAAGGCATTCTTTCTCTGCAGGCGCCACACTCACATGCACATTTCTACACCTAGACATGCGCATACATAAAATAAGAATGAATGAATCTAAAAACAGATAATCTAATGTGTTTAAAGTCACCCATCATGCTCTCAGACAGCATTTATTATAAATAATTCCATGTATTCCCTTTCCAATTGTCTTTTTATATATGCTCATTTAAACTTTTTTAATAATTAGAATTTCTTTTTAAACATATGTATTTGTTACTGGTTTTGCCATTATAGATGTAATGGTTAAAAGCCATGCATGGTGGTACATGCCTATAATTTTAGTGCTTGGGAGCTGGAGGCAAGAGGATCAAGAGTTGAAGACCAGTCTCCACTACAAACATACTAAATTCCATATCACCCAGGCCATGTGACACCCTCTCAAAGAGAAAAAGGAAAGGGAGGAAGGGGGGGGGGAGAAAGTGGTGTTCATTCTTCCAGCAAGACAACAGGCTCAAGTTTTCTTATCTGTATTAAGATATAGACCTTTGTCCCTATCCCTAAGTATCTTGGCCTATAATCCTAGCATGTAGAATATGGAAGCAGGAAGATCAGGAACTCAAAGCCCTTGCTCTTGGCTCTTTGGTATTTTCCTTTCTGTTATATTTGAATATGGATGAAATCATGTCATGTGTAGAATTTAGAATTTCTGTCTTTTAATTTCCCTACGTCATTTAGACTTTTTTTTTAAGTAGAGCTTTCTTGTTTCTCTTTAATAAAATATTTCAAATGCATAGAAAACTTTGCTGTTTTCAACCTGTTGCAGAACCTCTTGCTTTTTAGGAAGCGTAGAAGCCATCCTCATGCCTATCTATCTCTTTGTCTCTACAG
Seq C2 exon
AGCAAGGGTCAGAAATTAGAACCCATCCCTCATCGAAGACTAAGAATGGTGACAAACACTATTGAAGAAAACTTCCCTTTGGGGACTGTGCAGTTTTTAATGGACTTTGTTTCACCCCAACATTACCCACCCAGAGAAATTGTGGCTCACATCGTCCAGAAAATCCTGCTCAGTGGCTCTGAGACTGTGGATGTCCTCAAGGAGGCCTACATGCTTCTCATGAAAATCCAACA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000043183:ENSMUST00000121401:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.808 A=NA C2=0.115
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGCTCAGCCAGGAGAGAGAAA
R:
TTTCTGGACGATGTGAGCCAC
Band lengths:
348-1979
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