MmuINT0139047 @ mm9
Intron Retention
Gene
ENSMUSG00000038371 | Sbf2
Description
SET binding factor 2 [Source:MGI Symbol;Acc:MGI:1921831]
Coordinates
chr7:117483404-117484878:-
Coord C1 exon
chr7:117484804-117484878
Coord A exon
chr7:117483589-117484803
Coord C2 exon
chr7:117483404-117483588
Length
1215 bp
Sequences
Splice sites
5' ss Seq
AAGGTACTG
5' ss Score
8.56
3' ss Seq
TTTTCTTGGCTTTTGTGAAGGCG
3' ss Score
3.95
Exon sequences
Seq C1 exon
TGCATGGGTACAGAGACAAAAGTTTCACTCAGTCAAATCCCAAATCTTCAGCTAAGGAACCAGTTCATAATCAAG
Seq A exon
GTACTGTATTTGTATTATGTGTGCTAGTGTGTCACTTTTTAAAATCACCTTCTCATAAAAGTGAATGCTACAAGTAAATGTTCATGTTGTCCAATTATATCCTTTCTCCTCATTTGTATTATGACAGTCCTGTGATTGCATTTAAAAACCATTCATTGCCATACTGCCTGAGATTACATGTCCTCCATGTTAGGCAGAGCTCGCCTGCCCTATCCTTGCACACTGGCGTGTTAAGCTGCACAAATGCTGATAGAGAAGGCAGCATGGCGCTGTTGAGGCAAAGTCAGGCATCTAGAAACAACGAGATATTATCACTGGGGAAGATTCTGAAATAGCCTTTCCAGGTTTACACAAGAAAACCCAACTTTGGGGAGGTCTTCACCCCTTAACCCATCTCTGCAGCCATGTGTGAAAGGTTCTGTTACTTTAAAGATGCTGCACTTGGAATAAGTATAGTCCTGTTTGGATGTTTGATATTTTAATCACTTCAGACACAGAAGTCCTTGATTTTTTTTTCTAATTAATATAAATTAGGTTGGCTTATACAACATGACTCTTTGGTCTCCTTACTATGGGTGGACTCTCTCTTAAAAGATATCTGCTTCTGACCATATATTTTAACTCCTAAATTAAATGAAATGCACATTACTAAATTTGTATATTTTTTCTAGTTTTTATGGAGACTCTATAAAAGAATTTTAGTTGTTTAAAATTAGGCCATTTTTTACCTAACCAGATTTGCATTCTATACCACGCCTCTGACTTTAGAAGAATTCTTACATTTTTAGTTTACCTCATGCTATGGTTTCTGTTAAACTGAATATAGAATCAGAAGAGCAGTCCTCCTGTGAGTCCCGAGAGCCGCAGAGACCCTGTGCTCCTCCCACCCTTCCGGTCCTGCCTGCACTCTGCTCCCTGCAGCACACACTCTGCTTGTCTCTCAGATTTGCTTTAAATGCCACATTTATAATGACATGAAATGAGACACAAATGATTTCTTAAGTTCTTCTAAACTTAAGACAAAGTGATTTTTAAACTACTGTATCAAATAGTGTTTATATTGAAAAACAGATGCCAAATGAGTGTTATGATCTGTGGCTTAGATTGATTGCCCCTTAAGATTAAATTATGTTACACTAAAACTGTCCCCAGAGCATGTGTCTTACTCAGCCGCATCTCACATCATCTCATTCTGTTTTCTTGGCTTTTGTGAAG
Seq C2 exon
GCGTATGGGCAAGTCTTCGTTCCAGCACCCGTTTGATCAGCTCCCCGACATCCTTCATTGATGTTGGTGCCAGGCTGGCAGGCAAGGACCACTCAGCCTCCTTCAGTAACAGTACCTACCTACAAAACCAACTCTTGAAACGACAAGCCGCCCTTTATATATTTGGTGAAAAGTCACAGCTACGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000038371-Sbf2:NM_177324:29
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.395 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF066029=Myotub-related=FE(5.5=100)
A:
NA
C2:
PF066029=Myotub-related=FE(13.3=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGCATGGGTACAGAGACAAAAGT
R:
TTTCACCAAATATATAAAGGGCGGC
Band lengths:
246-1461
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: