MmuINT0139177 @ mm10
Intron Retention
Gene
ENSMUSG00000035236 | Scai
Description
suppressor of cancer cell invasion [Source:MGI Symbol;Acc:MGI:2443716]
Coordinates
chr2:39103664-39107072:-
Coord C1 exon
chr2:39106920-39107072
Coord A exon
chr2:39103766-39106919
Coord C2 exon
chr2:39103664-39103765
Length
3154 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAAG
5' ss Score
9.65
3' ss Seq
CAAGTATGTTTTTCTTTCAGGTC
3' ss Score
10.6
Exon sequences
Seq C1 exon
GCAGACCCTGTGATGGTGTTAAATGATGATAACACTATTGTTATCACATCCAATCGCCTCGCTGAGACAGGAGCCCCCTTGCTGGAGCAAGGCATGATTGTGGGACAGTTGTCTCTGGCTGATGCACTCATTATTGGTAATTGTAATAATCAG
Seq A exon
GTAAAGAACTGTGAAAGATTTATGCTTAAAATTTACTTCAAAAAAGTTTGTTTTGATCATCCATGGATTTTTTTTTTCCCTTTGTAGAGCTCCTTACAACTGTGAGGAATGGTCAAATCAATTATGCCATGTTCATATATATCTGTAATTTTTTTAGAAACAATGTTAATGATATGGAAAGATGATTATTAGTATATTAATTTGCCACTGAGCTAAATCTATATCCCTACCCCAGTCAATATGTATGAATTATCAGTCATGTCTTCAGGGAATGTGTGCTTTTAAATAAAAAAAAGACAAAGTGTCTTCACTAATAAAGCTTTCTGTTTACCTATAAAAAATACTAACAAAATAACTACTGAGATAATATCACTTCAACAGATATAGCAAAAGAGAAGTGTAATGTTCCGATGTTTGGCATCAAGGGATTTGAGCTAGCTATCTGAGAGATGATGGGATTTTTTTTTCTGACAAAGTGCTGTGGTTAAGAACAACAGTAAAAGCCGGGCAGTGGTGGCGCACGCCTTTAACCCCAGCACTTGGGAGGCAGAGGCAGGCGGATTTCTGAATTCGAGACCAGCCTGGTCTACAGAGTGAGTTCCAAGACAACCAGAGCTACACAGAGAAACCCTGTCTCAAAAAACCAAAAAAAAAGGGAAAAAAAAAGGAACAACAGTAAAATCCAGGCAGTTGTGGTACACACCTTTAATCCCAGGACTCAGGAGACAGAGGCAGGTGGATCTCAGTGAGTTTGAAGCCAGCCTGGTCTACAGAGTAAGTTCCAGGATAGCTGGGGCAATACAGGAAACCCTGTCTTGAAAAACAACAAAAACTAACATAGGAAGTTGTCCAGAGTAAGCAAAAGTAGCAATCGTACTACTGTCTGCAGACTTGGTTCCCCGGGAGGATGGGGCACTTATAAAACGCTACACTGGGTGGGATGGAAAGAATAAGAAGCACCAGAAAAAGACAGGAACTGGCAAAGGGTGGGGCTAGTGAGGGCTGCATTTTGAGGTCATTTTTTATAATTTCTTAAATTATTTTTTATATTTTAGATGTCATACAAAGTAATAGGTTTCATTATGACATTGCATATATACATATACAGTATCTCACTATATAGCTCTGCCTGTCCTGGATCTCACTTTGTAGACCAGGCTAACCTTGAACTCACTGAGATCTGCCTTCGTTTACCTCCTAAGTGTTGCCACCATGCCCAGAAATACCCTGTTTTTAAAAACAAGACAACCAAAACCAGCAAACTAAAAAACAGGAAAATTGCAGTCTGTAGTTCCAATGTAGAGCTTATGTCTTAGAATTCAAAAAGAGCCAGGTGCTGTGCCTATAATCACAGCCCTTGGAAGGCAGAAGAAGTAGGTGTTGAGGCCATCTTGGGCTACATGCAGGACCCTTTCCAAACAAACGGGAAGAGGAATGCATGAAACTACTGCATTGGTTCTGTCCTGGATCACATGGTGTCAGTTACATCCTCTTTGACAGTGACAGGACACATAGCCAGGGATTGTCTCCTTGCTCTGATCTAGACGAGCTTGCTTCATGCTGTTGTGTTGAAATACTGGGTGGTAGAAATCACACTATTGGGAATTCAGTGTGTTGAAATGTTAAATGTCTTCAGAAATACCTGGATTGATGACTTGTTTTATACATTTTTAAATTTTTTTCCTGTGAAATTTTTATGTGAGGAAAATGTGAGTTTTGCTGATCTGCTAAGAGAGATACTAAATGGAATTCTGGTAGCTCAGTGGGAGAGCACTTGCCTAGCATGCATGAGGCCTGTGGACCTGATTCCTAGCAATTTATGTTTGAATGAGGTACATTTTCATTTTGATTTTTGAGACTAGCTCTCTCTATGTAGCCTAGCCATCCTGGAACTCTCTTTGTAGACCAGGCTGACCTCACACTCGAAGAGAGCCACCTGCCTCTGCCTCCCAAGTGTTGGATGCCCAGTCTAAGGCACAGCTGGGAAACTCCAGGAAATCATCTTTCTGAACAACTCCCATAACTAGTTTATTTTATAAACCTCTTCTTTATTCTGTCATTACATGTTCCTAGGTCTTCTATAAAAGTATTATTGAAAACAAAGAAAGATGCACTCTTAAATACTGTACAGTGCCAGAACACTAAGGAGATCATAAAGTATGAATCCAGACATTGCTCAGCTTAAGCAGCTGTTACCATGATTTGTAGGGCTGTGCTTTTTGTAACTTTTGTTGCTTTCTAAAGACTACTTGAGCAAATTTACAAGTTATGGAGAAGCCTAAGCACTGTTAATTACACGAAGTAGACAGTGAGCATAGGGGTGTCACTGCATAAATCTTTTGTCACATTTGCCTTTTGAAAGTCTTGTAATTAAATGTCAAAGAATAAAATATGAGCTGTCTCTGGGCATGGTTACTCAGGCCTTTAATCCCTGACTTGGAAAGTAGAGGCAAGGAGATCTCTTGAGTTCAAGACCATTGTGGTCTATATAGCAATTCTACATCGGCTAAAGATACATAATAAAAACCTGTCTCAAGCAAACAAAAACAACAGCAACCCACCCATAGACAAAGAACTATAGGCAACTAAGGAAAGCTGACAGTGGGAGAAATAGGAATGTACCCCCAGTCGGTTACCCTATACCAAGGGCTCAGCTGTGAAGTCATATACGTGTAAGTGAACCAAGCAGGTTGTATTTAGATATTTAGGTGCATACACACATACCCACACAGACATCCCAATAACAATTAAAGAAAAAGAGACAGCAGGGCAGTGGTGGTGCACGCCTTTAATCCCAGCACTTGGGAGGCAGGCGGATTTCTGAGTTCGAGGCCAGCATGGTCTACAGAGTGAGTTCCAGGACAGCCAGGGCTACACAGAGAGACCCTGTCTCAAAAAACAAAATAACAAAAAAAAAGAAAAAGAGACCATGATTTCAAGATGGACCAAGGCAGGTAGTACATGACAAGGATTGGAGGGTGGAAAGAGAAGGGGAATGTAACTTCTATTTTAAAAATGAATGTTTTTTGTATGTACACATGTATATTTTAAAATCAGCTGTTATTAAATATACCTGAAAGTCAAGAGTAATAATGCGATCAAAGACCAGAAGTTCTGCTTATTCCATAAATGACCAAGTATGTTTTTCTTTCAG
Seq C2 exon
GTCAAATTCAGCGAATTAACTGTTGACATGTTCCGGATGTTGCAAGCCTTGGAGAGGGAGCCTATGAATTTAGCTTCCCAGATGAATAAGCCAGGAATACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000035236:ENSMUST00000038874:9
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=0.324
Domain overlap (PFAM):
C1:
PF120703=DUF3550=FE(10.1=100)
A:
NA
C2:
PF120703=DUF3550=FE(6.7=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:
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