MmuINT0132607 @ mm10
Intron Retention
Gene
ENSMUSG00000046201 | Scaf8
Description
SR-related CTD-associated factor 8 [Source:MGI Symbol;Acc:MGI:1925212]
Coordinates
chr17:3145075-3148580:+
Coord C1 exon
chr17:3145075-3145158
Coord A exon
chr17:3145159-3148535
Coord C2 exon
chr17:3148536-3148580
Length
3377 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGT
5' ss Score
10.47
3' ss Seq
TTCTTTTTCTTTTTCTACAGTTT
3' ss Score
10.47
Exon sequences
Seq C1 exon
TTGTATTCACTGAATGACTATAAGCCACCCATTTCTAAAGCAAAAATGACCCAAATTACAAAGGCAGCCATCAAAGCTATTAAG
Seq A exon
GTGAGTAACAAATTTTACTTTTTACTTTTGTGTCTTTTTAAAAGAAAATAACCCTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGAATGAGAGAAAGAGAGAAAGAATGAGAATATGTGCATGTGCCATGCATAAAGAGTCCTGTAGATATATCAGGCATCTTCCTGCATTGTGTCCCCCCTCCCCCCTTTTTTGAGATAGTCTGTGGGTATTAAATTGTCAGTTTGGGAGATGGGCTTGGGGTGTGCCTGTGGGGAATTACCTTGATTACCTCATTGAGGTGGGAAAGCTTGTCCACTCTGGATGGTGGACCTGCACTCTACCTAGTATCCTGGCCTGCATACACAGAGCTTGGAGTAGAGTAGCAGCAGGCATCCACCATTTGTTGTTGCTGCTGCTACTTTAAATTCTAACTTGTATGTAGGGTGTGCTTTTAAATGCCTGGCAATTAGAGGGCAGCTATCCCTCCTTTCACCACAGGATGTGAAGCTTGAACTCATGCCCTTGAGTTTATCTGGGAAGTACTTTTAACCACTGAGCCATGTCCCTGTTTCTCTCTGCTTTGACTGTGGATGTGTGTGACCAAGCGTCTCAGGCTTCTGCTTCTACAACTTCTCCAACATGACAGACTGACCTGGAACTGTATTGAGTTGGCTTTCATTAGGATGTCGTCACAGCAGCAGGAAAATAAACTATATAGTTAGACTGGCACATACCTGGTTCACACATGTACATGTAGGGAAAACACTCATACACAGAAAATTAAGTAAGTAAGCCTAAAAAAAAAAACCTTTAAAAAAGCCAAAAAGAAAACAATCTTTTATAATTTTTGAAACAAGCATTTTCCTTACCATACAGGTATGTGTTTGGATATATAACTACATCATAGAGTAAAGGGGTTCCAATACTGGCGTGTGTCACTACACTGACTGCAAAATTTTAAATATAACTATGTAAAAGACTTGGAAATAAAATTGGTATATTGTTTTTTTCTCTTATTGGTTGTATATAGATCTGAAAACAAATCATGAAAAATAGTTGGGCTTCCTAGTGAATAAAGCACTTGAATTTTAGGAAGAGACCATGGGAAGTTATGCATTGCTCTGATGCAGTGAGTTTTGAGCCTGTTAACTCATCCATACCTGGAACCACAAGGAAAGGTTGGACTCTCTGAGATGAACACATGATTTGTTTTAAAAAAATCTCTCAAGTTTAGTCATATAATTTCTTGTCTCCTGATCTAAGACTTCCTTCCAGCAATGATCTTAAAACTGAATGATTGCTTCTAATTAAGTAAGTATTAACATGAACATATAGTGATTAAAACATTAGCTCTAACTAGACCCAGAAGCTAATAAATTATCTTTTGAAATATAGTAACATATTAGCATTCCTAATTATTAGTATCTGCTACCAGAAGAAATTCACTTGAATCTTTGTAAAGTTTAAAAAATTAAGTTTGTGTGTGTGTGTATGTGCATGTGCAGGCCCGTGTGCCCTGCACAGCACCTGCTTAGAGATCGGAGGAAAAACTTGCAGGTATTCTTTTCTTTTGTGTGGGTCCTAGGGACCAAACTTAAGTCAGTGAGGCTTGTGTGACAAGCACATTTACTTGATGAGCCATCTTGCCAGTCTTTGCTTGTGTGTGAATTTGTGTGAGTATGTATGTAAACCCCCATATTTTTATGTAAAAGAAAAAAAAGACAAAAACAAGAAAAAAATCAAAGATGAGTTATAAAGATGGTGACAAGCACATTTAAGCCCAAAAATTCTGAAAGAAGTTAGTTAGTTTGTCTGTTTTAAGTGCATCTGATAGGATAGGCCTGGTGTGCACAAGCTTTCTTTTATACATATTCTCTTGTAGTTTATACCATCTCCAGTGATCTGATTATTTGGATCATGGTCCTAAGAATATGCAAACATGTATGTTAATACCAGCAGTACTAGTCTGAAAAATTAGTAATTGGTATAATTCATGAAAAACTGTTCAGCAGAGTACTTGTTAAATTAAAAAGATTCAATGAAGTGTAGGTTCTAGCATTATTTTCAGATGTCAGAAGAAAATAGTAGTCATGAATAGTGTGTAGAGTTTGAATTGGGGTTTTTGTCAATTGAGAGTAACTCAATTTCTACAGTGTACTGTATTGTTAGGTATATTATTACCACCTTTAATAAATCTAGTTTCGGAAAAGTTGTAGATTCTGATAAGCACTGTTTTACCCCTTGGCTACATCAGTCAGTAATTATTTGTTCTTTATTTCTACTCCCATATCACCTGTCAGCCTTTTGTCTAAGATCCAGGGCATTCACATTCACGCACACATGCATGCAACCCCAAGACTTCAGATGTCATTAATGGTAACAGTCCCTAATACTTGCATTTAAATCTCATAAAAATGTAGACTTTTCTTAGAAAGCACCCCAAACCATAGTATGTTGAGATCATCTGTAGGAATTTTATTTGGATAAAGTACTTTTATGCTTATATGCTACAGTTATCCCATGTATACATTCCAGTGTTATAGCTTTAGTTCTTAATGTTTCTTCAGTCTAAGGACAGGGGTTATCCTTTGTAAAGCAGAAGTCATGAGACTGGAAATATAATTCAGGTTCTTCAAAAGAGAAATGTTCTAATCATGGCATTACCATTTACATACTAAAATTTTGTTGTTCATAATTTCTATCCTATTTACTTTCAGGTTTATGTTGAACTAAGTGTTTTCATAATTGAAAGCAGCTCATTTAATTTTGTATGTATTGTTAGCACGTTGTACATAAATTCTTCCTCTGTTTCCAGTTGAAACAGACTCTCACATTTATTAATGGTTAGAGTTACTTGCTTTTTCTAGTATTGTCCTTAATTTAGGTATTAAAATGACACTGTAGAATGTGGGTAGAATGTGGGTACTTTTTCCTTCTCTGGAAAGAGCATGCTTGTCAGTGTGCAGTACTTTGCTGTCAGTACAACTTGTCAAAGTGTGCTTTCATAAAGATTCCTTTGTTTTTGTTTTTTGACAAGGTTTCACCGTATAGCTGAGATTTGCCCCAGCTTGTTATCACTTAGTTTCAGCCTCCCTGATGCTGGGATTATAGGCATGTACTACCCTGACCAGGTAGAATGGTTCTTTGTAACACACTTTCGATACATTCACTGTGCATAAATGCTTCAGAGGATTACTTTAAAAATTCAGTGTAATAGCTAGTTTCCTGTAATGGTGAATTATGTGAATCCCAAAAGTTTGACTGAAATTTATTATTTTAATGGATCTTTGGTGTTCTTCTTAAGCTTGTGGTTATCAGAAAACTTTAGTCTAGCAAACTGATTTTAGAATCATGTTTTCTTTTTCTTTTTCTACAG
Seq C2 exon
TTTTATAAACATGTGGTACAAAGTGTTGAGAAATTCATTCAGAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000046201:ENSMUST00000076734:2
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:
NO
A:
NA
C2:
NO
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
- 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