MmuINT0152669 @ mm10
Intron Retention
Gene
ENSMUSG00000022983 | Scaf4
Description
SR-related CTD-associated factor 4 [Source:MGI Symbol;Acc:MGI:2146350]
Coordinates
chr16:90247645-90248703:-
Coord C1 exon
chr16:90248513-90248703
Coord A exon
chr16:90247746-90248512
Coord C2 exon
chr16:90247645-90247745
Length
767 bp
Sequences
Splice sites
5' ss Seq
GTGGTAAAT
5' ss Score
5.18
3' ss Seq
AATCACTAATTTACTTTCAGTTT
3' ss Score
5.99
Exon sequences
Seq C1 exon
GTCACCAAAAAGGAGAAGATCTAGGTCTGGCTCTAGGTCTCGGAGATCCCGCCACCGTCGCTCTCGGTCTCGGTCCAGGGACAGGCGCCGACACTCACCTCGCTCTCGATCTCAAGAAAGACGGGATCGAGAAAAAGAGAGGGAACGGCGGCAGAAAGGCCTCCCTCAGATCAAGTCAGAAACTGCAAGTG
Seq A exon
GTAAATAGTGAACCTGTCTTCATACTCTTTATTGTTTTTTGTTTTTGTTTTTTTCCCCCGTTTTGGGTTTAAGATGTTTTATGACTGTTAGCAAAGCCATAAATGATATGTTATCATCGTGGTCGAGTTTTATTCTGAGTAGGGCTTCTGTACGTATCTCTGACTTATGTACTACACGGGCTTTCTAGTACTTCTGTACACATGAGGTGTATCTTTCCACTACCACAACTGCTTCCCTCTTTGATGAAGATTCAGTAATTTGTAGGCTGTGTTAGCTTGGTTGTCATCATTTTTAGAACATACATAGTAGGCATATTCTTGTAAATCATTAACTATTACAGTTTACATCATAATAGTGACCAGTAGGTATTTAAAATGAGGCTCATGCTTAGGAGACACCATACAAAGAAACTACGCACTGAAGCTACAAGTGGGTGGCTGCTGCTTAAGGCTGGGTGGGTTGGTAAGAGCCTGAGGTTCCAGCCTTGTTTTGTTCTGGCTGACAGATAGATGGTCACTGCTGTTAGGGCCTGAGGCTTCATGGGTATTGTTAGGTCTACTCACAGAGGGACTAAGTGCTTTTCCAAGTCTTGTGTCTTAGTTTAATTTCTAAATAACTACTTGTTAAACTTTTAAGTTTATATGTACTTTATGAGTGGGATTTTCTATTTAGACTTTTGGCATCGTGATGTGATGTAGTCATGACACTTATTAATGTGCAGTGCTGCTGGATGAAGTGTGTGTTTTAATCACTAATTTACTTTCAG
Seq C2 exon
TTTGTAGTACCACACTGTGGGTGGGACAACTGGACAAAAGGACTACTCAGCAGGATGTTGCCAGTCTCTTAGAAGAGTTTGGTCCAATTGAATCGATTAAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000022983:ENSMUST00000039280:12
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.923 A=NA C2=0.051
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0007617=RRM_1=PU(41.8=82.4)
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:
GTCACCAAAAAGGAGAAGATCTAGGT
R:
TCGATTCAATTGGACCAAACTCT
Band lengths:
287-1054
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