MmuINT1030706 @ mm10
Intron Retention
Gene
ENSMUSG00000046201 | Scaf8
Description
SR-related CTD-associated factor 8 [Source:MGI Symbol;Acc:MGI:1925212]
Coordinates
chr17:3167963-3169406:+
Coord C1 exon
chr17:3167963-3168139
Coord A exon
chr17:3168140-3169326
Coord C2 exon
chr17:3169327-3169406
Length
1187 bp
Sequences
Splice sites
5' ss Seq
AAGGTAGTG
5' ss Score
5.56
3' ss Seq
CGCCTTTCTCCCTTCCTTAGAAG
3' ss Score
9.31
Exon sequences
Seq C1 exon
CTTCAGCAGCTAATACAAACCTTACAGATACAGCAGCAGAAGCCTCAGCCTTCTATCCTGCAGGCCTTGGATGCTGGTCTTGTGGTTCAGTTACAGGCACTCACTGCACAGCTCACAGCTGCAGCTGCTGCAGCCAACACACTTACGCCCTTGGATCAGGGAGTCTCTTTCAACAAG
Seq A exon
GTAGTGATTAAAGCTACTGATATGTTACATGTGAACTGAAGGCTATTATATAGATTCTGCTGTGTAGATTATGTTTTATTACAGACTTGTGTGTTTGCTACTAATACCTAATCTGTCTGCCTCAGCCTCCCAAGTACTGTCTGTGTTCTATCATTTGCCTTGATAAAATAATCAGTATTGAAAGTTCAAAGAAAATTTTCTAGAAGTTAATATTATTGTATATTTTATGTATAGGCTTAACTATGGAAAAAGTGTTTTTAAAATTGAAACTGTTTTATGAATGATTTGTGTTGGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGAGAGAGAAAGATAGCCTCATCATAGTTGTCCCGAGTGTATCTTGGAAATGCTATGTGTGTGTATTTACATATGCACATACAAACATGTATATGCATGTTATTTCTGTTATAATTAGTTTCATAGAAAATCAATCCTGATTTCTTGGATAATGACTTGCCTATTTAATCAGTTGCTCCTAATTTATTCCTAGTAGGTAGACCACATTTTATCATGAAGTTATTGCTAGTTAACACTTGGTTATGGTCCTAGATGTTTTTTAAGCTACAGTTCCATAATCCTTCATTTTCTACTTGGTAGGTAATGACAGGTAGAGATCCCTAAGTCTGAGGCCAGCCTGGTCTACAGAGCAAGTTTCATGATAGCCACTACACAGAGAGACTCTGTCATGAAAAACAGTACTGTGCTTTAGTAGTTGTACTGCCTTGTCAAAATTGGTTCTGCTCTGGGATGATGCCGTATCCCTCAGTCCTCCAATGATTCCTTAACCTCCACAGGAGCCTTAAAACCAGAGATAGAGCTAAACCATCTAAAAACGTTTATACATACTTGTGTTAATGCTTAATAAATAAAGTAAGCACCGTGAGAAAAGAAGAACCAGTAATGCATGATTGTGAGCTCTGTTGAAAAATCACAACAGCAATGTTTTCAGACTTCATTGTGCACAAATGAATGGAGTTGCCTTGATGACTGTGTGAGGGGACTGCTGTATGTTACAGTCCTCTAAACATGTGTTCAGAATGCCTACTCTACTACAGAATAATGTACCATAGCACAGAACATTTACTTCGCATTTCAGTAGCATTTGTAAGATGCATGTTGGAAGCACTTTTTTAATTCGCCTTTCTCCCTTCCTTAG
Seq C2 exon
AAGTTGATGGATAGATTTGATTTTGGGGAAGATTCTGAGCATAGTGAAGAATCCAAAAAGGAAATGCCTACTCCTCAACT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000046201:ENSMUST00000076734:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.203 A=NA C2=0.963
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:
TCAGCAGCTAATACAAACCTTACAGA
R:
AGTTGAGGAGTAGGCATTTCCTT
Band lengths:
255-1442
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