MmuINT0141170 @ mm9
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
chr19:45072454-45072944:+
Coord C1 exon
chr19:45072454-45072598
Coord A exon
chr19:45072599-45072721
Coord C2 exon
chr19:45072722-45072944
Length
123 bp
Sequences
Splice sites
5' ss Seq
TCGGTGAGC
5' ss Score
9.1
3' ss Seq
CCACCCATCCCCCAACCCAGTGC
3' ss Score
3.81
Exon sequences
Seq C1 exon
GAAGACGCTGGAGGCTTCAGCCATCTGCCGCTATGACCTGGCTGAGATTCAGGCTGTCTTCACAGGCCCTTTTATGGAGTACCAGGATGGTGCCCGGCGCTGGGGCCGCTATGAGGGTGGGGTGCCTGAACCCCGGCCTGGCTCG
Seq A exon
GTGAGCACTCAGGCCTGGACCCTACGTTAAGTGGACAAAGCTCAGGGGCGGGGTGGGGTTCAGCCTTATACGAGGGAGGCAGGTGGTGGAGTCCTGAGTCTCACCACCCATCCCCCAACCCAG
Seq C2 exon
TGCATCACAGATTCATTGCGCAGCCGAGGCTACAACTCATCCCAAGACTTGCCATCCCTGGTTCTGGACTTTGTGAAGTTGCATCCCCTGATGGCTCGGCCTGTGGTGCCCACACGTGGGCGGCCCTTGCTGCTGAAGCGCAATGTACGCTACACACATCTCACAGGAACACACGTCAGCACACCTGCTGGACCCACCTATGACCTGCTCTTTCTGGGCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000025207-Sema4g:NM_011976:10
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.082 A=NA C2=0.027
Domain overlap (PFAM):
C1:
PF0140314=Sema=FE(11.1=100)
A:
NA
C2:
PF0140314=Sema=FE(17.1=100)
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:
TATGAGGGTGGGGTGCCTGAA
R:
AGAGCAGGTCATAGGTGGGTC
Band lengths:
247-370
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: