MmuINT0141171 @ 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
chr19:44998232-44998786:+
Coord C1 exon
chr19:44998232-44998454
Coord A exon
chr19:44998455-44998670
Coord C2 exon
chr19:44998671-44998786
Length
216 bp
Sequences
Splice sites
5' ss Seq
CAGGTGCTT
5' ss Score
4.83
3' ss Seq
TTCTGCCCTTTTCACATCAGCTG
3' ss Score
6.45
Exon sequences
Seq C1 exon
TGCATCACAGATTCATTGCGCAGCCGAGGCTACAACTCATCCCAAGACTTGCCATCCCTGGTTCTGGACTTTGTGAAGTTGCATCCCCTGATGGCTCGGCCTGTGGTGCCCACACGTGGGCGGCCCTTGCTGCTGAAGCGCAATGTACGCTACACACATCTCACAGGAACACACGTCAGCACACCTGCTGGACCCACCTATGACCTGCTCTTTCTGGGCACAG
Seq A exon
GTGCTTCTGACTCAAATCCCTGATCCCTAAATGGCCTTGGTTACTGATGTTCCTGCCACATTAGCTTGGAGTACCCCATGTCCCGAGGGACCACTGCTGGTGGCTGATTCCTTGTCTCTAACCTTGTGATTCCTGAGCTGTCCCCATTAGGCCTCCTGTTGGGTACTGAGAGCATATCACACTGTTGGATTCTGACTTCTGCCCTTTTCACATCAG
Seq C2 exon
CTGATGGCTGGATCCACAAGGCCGTAGTCCTGGGCTCTGGGATGCACATAATTGAAGAGATACAAGTGTTCAGGGAGCCCCAGTCTGTGGACAATCTAGTTATCTCACCAATGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000025207:ENSMUST00000026225:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.027 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0140314=Sema=FE(17.1=100)
A:
NA
C2:
PF0140314=Sema=FE(8.8=100)
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:
GCATCACAGATTCATTGCGCA
R:
GGGGCTCCCTGAACACTTGTA
Band lengths:
303-519
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