MmuINT0141173 @ mm10
Intron Retention
Gene
ENSMUSG00000025207 | Sema4g
Description
sema domain, immunoglobulin domain (Ig), transmembrane domain (TM) and short cytoplasmic domain, (semaphorin) 4G [Source:MGI Symbol;Acc:MGI:1347047]
Coordinates
chr19:44998878-44999240:+
Coord C1 exon
chr19:44998878-44999038
Coord A exon
chr19:44999039-44999178
Coord C2 exon
chr19:44999179-44999240
Length
140 bp
Sequences
Splice sites
5' ss Seq
CAGGTCCCA
5' ss Score
-1.05
3' ss Seq
TCTTGATTTTCTTTCTGCAGGAC
3' ss Score
10.86
Exon sequences
Seq C1 exon
CACAGCCTCTACGTGGGGGCTGCAAGTGGAGTCCTCCAGTTTCCTCTGTCCAGCTGCTCACGCTACCAGTCCTGCTATGACTGCATCCTGGCACGGGACCCCTACTGTGGCTGGGACTCCAGCATCCATGCCTGCATGGTGGCCACCACCGTAGCCAACAG
Seq A exon
GTCCCAGGGTAGAGGTTGGACATAGGGATGGGGTAGATGTGCCTTAAGTGGAGGAAGAAAGCCCACCAGCCTCTAAGGTATTGTTGGTGAGCCTGATGCCCATTTCCCAGTGTTCATGACTCTTGATTTTCTTTCTGCAG
Seq C2 exon
GACAGAATTGATACAGGACATAGAGAGAGGAAATCGAGGCTGTGAGGGCAGCAGGGATGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000025207:ENSMUST00000026225:13
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=0.409
Domain overlap (PFAM):
C1:
PF0143720=PSI=PU(69.2=66.7)
A:
NA
C2:
PF0143720=PSI=PD(28.8=68.2)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CACAGCCTCTACGTGGGGG
R:
ATCCCTGCTGCCCTCACAG
Band lengths:
219-359
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- 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