MmuINT1030707 @ mm10
Intron Retention
Gene
ENSMUSG00000046201 | Scaf8
Description
SR-related CTD-associated factor 8 [Source:MGI Symbol;Acc:MGI:1925212]
Coordinates
chr17:3169327-3171220:+
Coord C1 exon
chr17:3169327-3169406
Coord A exon
chr17:3169407-3171102
Coord C2 exon
chr17:3171103-3171220
Length
1696 bp
Sequences
Splice sites
5' ss Seq
ACTGTAAGA
5' ss Score
4.8
3' ss Seq
ACCTTTTGTTTCTCACTCAGCTC
3' ss Score
8.03
Exon sequences
Seq C1 exon
AAGTTGATGGATAGATTTGATTTTGGGGAAGATTCTGAGCATAGTGAAGAATCCAAAAAGGAAATGCCTACTCCTCAACT
Seq A exon
GTAAGAATTATGATTTTCTTTATACCCATGTTTTCTTTTTCTGTTGTTCTAAATACTGGGTGGAATGTTAGCAGACTTAAGAGTTGGAGTGAGTTTTTCATAAGTTGGGTTGTTTCAGGCTCTAAGCACCAAAATTGTGAGGGGCGGTGGGCTTGTTGTCTTAACAAGATTATTTGGACTCTTTTTTCAGATCTGTGCAATTGGTTGTGATATATCAAAGTTCCCTATAAGAAAATTAATAAGCATTAGTAACTCCAGTTGTGATATTTTCTTATATCTTTGTTGGCTTAAAATAATTTAGTTGTAAGAATATTTGTAATAGGTGGACAGATGCTTCTGTCAGAGTCCACTTCTAGAGTATTTGCCAATTTCTGAGAAGTACATTGAACTAGTTAGAATTAGGAATTCTAAGGATTGGAATTATATGGGCTTTATTTATTTCAATGAATGGAGTTTGTATTTTTATTTAAATTTGTTGCTTTCTCCCCTTAAATGGCTGTACAAAGCCCTGTGTTTGTGAGTGTGTTTATAAAGACCAATAGGAGAGTATGAGGTGGAAGTTGAGAGAGAATGAGTGGGATCTCACCCAAGCAGATGTAGCAGATCTTATATACCAGGATAATGTGTAAGAATACATAAGATAAAGTACATTCTTTTGACATAGGGACTTTCTTGGCAGAAGTTTAAAAATAGTATTGTAGATAGTAAACAGTGAAGTTGAAAGAGCCATTTGAGGTCATGTGGATGAGGGCGCTAAACAGTGTAAGACGTTGTTAATGGTCCTGAGGGGAGAGTCAGTGCTTTCCCACCTTCCGAGGAAAGAGTTTGTGGACTGTTCTAGTGTGACATGTTCTGTTGAGCTGAGTTCCTTCATTTTCTAGACATCAATTCAAACGCTGTGTATTGAAAGAAAAATCAGTAGACTCCAATTTCTTTCATGACAGCATCTGTCATATTTGAAGATAGATACCATTCTTCCCATAGGTTCATCTGCTCCAGGTGACAACAGTCTGGAGACCTCTCACCACCCTGCTTGTTCCTTTTAGGGCTCCCTCTTTATTCTCATGTCTTACCTTCTAGCACCCAGGATTACAGGGATAACCCAGAGTGCAGTTAAATTATTATTTTCTCTTATCTACACACGTTTCTGTTTACATACCTCATAACATGATGCTTTTTTAAAGGACACATACTCTATAAAGTTTATGGGCAGTGATAATTGTAGATTTTACACATCCTGATTGATAGGACATTTTCCACTGTCTCATGATTAAACGTGAGTTATTAACTTGATAATGTTTACACGTTTACCTTTTTTGAAACAAGTGTTTGCAGTTGTACATTACCATAATAAAAGTTACTAATTTATATGTATAGCATGTCCATTTATATGTGTAGCATGAGGCAGTGATGTCAGCTTCGTAACAGAGCAGCTATAATGCTTTTTTGTTGAAACGTTATTGAGTTCTTTCTCTTCTAATGGGTTGATGTTTCAGAGTATTCCACTTTGGTTATTAATATTTCAAAAAGAGAACACTGCAGTAGAGTTCCTTGTGTGAAGTGCTTTTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTTGTTGTTGTTGTCTGCCTGCTTGCTTGCTCTCCGTTCCCTTTTGTCATCTTAACATGCAGCTTCACCTTTTGTTTCTCACTCAG
Seq C2 exon
CTCTCACGTTTCAGAGTCTGTGAACAACTCCATCTTCCATCAGATAGCAGAACAGCTGCAGCAGCAGAACTTGGAGCAGTTGCGACAGCAGCTCCTGGAGCAGCAGCAGCCTCAGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000046201:ENSMUST00000076734:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.963 A=NA C2=0.675
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGATGGATAGATTTGATTTTGGGGA
R:
CTTCTGAGGCTGCTGCTGC
Band lengths:
194-1890
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- 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