MmuINT0141174 @ 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
chr19:44999179-45003397:+
Coord C1 exon
chr19:44999179-44999240
Coord A exon
chr19:44999241-45001167
Coord C2 exon
chr19:45001168-45003397
Length
1927 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGT
5' ss Score
10.86
3' ss Seq
TATTGATCCTTCTTCCCCAGGAC
3' ss Score
9.01
Exon sequences
Seq C1 exon
GACAGAATTGATACAGGACATAGAGAGAGGAAATCGAGGCTGTGAGGGCAGCAGGGATGCAG
Seq A exon
GTAAGTGGAACTCATGGACTTGGGTCGATGTTTCTGACTTGGTGTGCTTGAGTGGTTCTGGTGAGTGAGTGAGTGCTGGGCAGATATTTATTCCCCAAGTATAAATGAGGAAATAGGCTCAAGACTTGGAGACAGGTGGGGGTGTGGCTCATTGGTAGATAACTCTCCTTGACTTACTGTGTAAAGGCCCTGGGTTTGCTCTCTAGCGCCATAACACACACACACACACATACACACACACACACACACACATACACGGGGTGGGGGGACAGGGGAACTAATGAGTTAGTTATGTTTATATGATCACATCTAAAGTATATGTCTAAGTGGGGAGGTATAAGCACAAATAACTATGATTATTAATAGTTGCAACTACAACAAGATGCAGAAGGTTAATGTGTTTCTCTCAAACAAAATCACCACGTAGCAGAGCTGATATCTGAAGGAAGAGGAGTCAGCTGTCAGAGCTGACATGGACTGAGCACTCAGGTGACAGCACTGGTCTAAATCCTGCTGCGTGCATTTATTTTCACAACACTCCGTGTGAGCGGCACCATTAGCATCCCCCTGAGGGACAGCCCCTCTGAGGCATGGGCCATGTGAGGAAACTGTTCATGGTTACTCAGCTACTACATGGCAGGTGCAGAAGCAGCCTGGCCTCAAGCAGTCAGATGCAAGTTTGTGCTTTTGATCACTAAGGAGTGCCATGTCCGAGCTCATCAGGCAGGGGGAGGGCATGAGGAGGGCACTGGCACCAAGCCGGGGGTCAGCGAGCGTAGGAGGAAGAGGCTGGCAAGGTGAGCAGGGACCATGTTCACAGTGTTGGTCCTTACAGGAAACCTCTTGAGAGTTTTACACCAACAAGCAGTATGATCAGATTTTTTTAGGGTTTCTCTGTGTAGCTCTGGCTGTCCCCTAACTAGTACTGTAGACCAGGCTGACCTTGAACCCAGAGGTCTGCGTACCTCTGCCTCTCAAGTGCTGAGATTAAAGGACTCCCCGCCCTATATTTAAAATATATATATATTATGAGTGCATTTTGCCTCCATGAATGTATGTGCACCACGTGCATGCGTCGTGTCCGTGGAAGTGAGAGTGTTGTAGTCCCTGGAATTGGATGCTTGTGAACCACCCCATAAATGCTGGGAGCCAAACTCAGGTCCTCTGCCAGGGCAACAACTGCTCTTAACCACTGAGCCAGCTCTCTAGCTCTTGTCCCTCAGAATTTTAAAACTGTATTTATTTTGCTCACAGGCATGTATGATGTGGATGCGCATGTGTAAGACAGCTTACAGGAGTCGGTTTTCTCCTTCCCAGGGACTGAAATCAGCAGTCAAGCTTAGCAGCTAGCCCCCACACTCGCTGCCCTCTCTGCTCAGTCTAGATTTGGGTTTTCGAGGGATCACCTTTAGTTGCAAGAGATTAAACAAGGGCCCTAGAGGGCATGCCGCCATGGAAGGAGAGAAAGGAATAGGTCTGAGAGTCTCATGAGGGTAGACATAGAGACGAGGGAGAGATGCGAGGGAGCCTCCCAGGTTCCTGATGCAAACTACAGAGCAGCTGGCGGTAGCGATGCAAAGAAAGGACCTGGTGTGGGTGACGTTGGCCTTATGAGATGCCCAGCACATGGTAAACAGTCAAGTCTGGTGTTCGGGAAAGAGAAGCTGTGCTGAAGGTAAGATCTGGAGGCCTGCGGTAAATGGTAGGAACTGAAAGCACAGGGCAGAGGAGCTGCCAGAGGAGGAAAGAAGGGCCCAAGACACTGCTTACTCCCCATGAAGGATGGGCCAATGGGCATCCCGGGAGGCATGCGTACACAGGCTTGCTCAGGTGTCCCCCATTCTGGACTCTGTGCCTCTAGACAGCTGTCTACAGTCTATCTTCCAATGCTGTCTGGGATCGGCAGGTATTGATCCTTCTTCCCCAG
Seq C2 exon
GACCACCACCACCACTCAAGACCCGATCTGTGCTCCGGGGTGATGATGTCCTCCTGCCCTGTGACCAGCCGTCTAACCTGGCCCGGGCTTTGTGGCTACTCAATGGGAGCAAGAGCCTGAGCGATGGGCAGGATGGCTACCGCGTGGGAGTGGATGGGCTGCTGGTAACTGACACACAACTGGAGCACAGTGGCAACTATGGCTGCTATGCCGAGGAGAATGGCCTCCGTATGCTGCTGGCGTCCTACAGCCTCACAGTCCGGCCAGCCACCCCTGCTCCAGCTCCACAAGCCCCTGCCACACCTGGGGCACAGCTGGCACATGACATGAGGATGTTCTATGTGGTAGCCATTGCTATACTTGGTGGCCTCTGCCTCATCTTGGCATCTTCCCTCCTCTATGTGGCTTGTCTGAAGGGAGGCAGACGAGGTCGAAGACGAAAATACTCATTGGGTCGGGCTGGCCGGGCAGGGGGCTCGGCCGTGCAGCTGCAGACTGTCTCAGGCCAGTGTCCTGGAGAGGAAGATGAAGGTGATGATGGAGAAGGAACTGGGGGTCTGGAGAGTGGCTGCCTCCAGATCATTCCCGGGGAAGGAGCCCCAGCCCCACCACCCCCACCACCCCCACCCCCACCCGCTGAGCTGACCAATGGGCTGGTGGCACTGCCCAGCCGGCTGCGAAGGATGAATGGCAACAGTTATGTGCTCCTGAGGCAGAGCAACAATGGAGTGCCAGCAGGACCCTGCTCCTTTGCAGAGGAGCTCAGCCGCATCCTGGAGAAGAGGAAGCACACACAGCTTGTAGAGCAACTAGACGAGAGCTCTGTCTGAGTCTAGCCCCGCCAAACAAATGCTCTTCCAAGCCAGCCTGGCTGCCCTAGGCTGGGCCACTGCCTCCCCAACACCTCCACCCTCCTCCATCCTCCCAATTCCATTTCCTTCCAACTTTTTGATGTCTCTGTAGGGCTGGCCAAAGTCATGGTTAGCCAAAGTCCCCTCTTCAGTCTCCAAGACACATGTGAGCAGCCCAGGCCCACCGGTGCTCCTCAAAGGTAGGTGCTCCCCCAGAACCAAGTACTCGGCAAACCCAGGCCCAGTTTCTATCCCTTGACCTAAAGACTTGGGAGGAGAGAATTGTCTTCTTATCCCGTTATCTGCCCAACCTTCCTCTTCTTCTCAGGTAGGGCTCTGCAGGTCCAGATGGCCTCAATGTCACCACCCTCTGCACAGCTGTGTGCTGAGTAGTCCTGAATTCAGACAAGACCTCTCTCTACCAGCCACCTGAGTCCTGCTTCCATTCACATGTGCACATGGAAGAATGTTTATCAGCTGGGCTGCAGTGTCCCACTCTTCCTCCTGGGGCACCCTTGTCTCACCTATCCTAGATTCAGGGCACCCTCTCAATTGCCACCTTGCTATCTCTTTCCAGCCCCAGCCCCGTGTGGTAACCCCCTGGCAGGAGACTGGGAGGAGAAGCATCAGTGCTCTCCTTCCTCCGCAGCCCTGGAGTCAGCCTCCCTCCTCCTCTCATTCACATGTAAGGCTGCCAGGGCTCCAGGCATGGCCTTTCCCAGATCAAGTGCTTACATTTCCACCCACATGTACATTCTGAACTTCCCCCTTGCTGCCTCCGTCAGACCTGTGTCTACTAGGTTTGGTCCATGGATATTTCAAAGGAAGATTTCCCTTCCCATTTATCGGTCCTCACTGAACTAGGACAAGTGGCCAACACTGCACTCAATGAGCCAGCTTCCCTCTTAGGGACCAAGTGATTGCTTCTCCTAGGCCAGAGCAGGAGGAAGTGATCTGCTATCTCACCTGGCACATGAAGCCCACTCCTGGAACTATGCAAAGGGCAGAGGCTGGGCGTGTGGATGCTTGGCTCCCATCCCTGTCCTACCTCACCAGGGCACTTTCAAGGTCCAAGGGCCTCAGATGTCTCCAGGCCCACATGGGACAATCAACCCTGACTGAGCCCCCCATTCCTCTTGGGTGAGGATGACTGTTATTTTTGTAGCTGAGAACGTGGAACCCCACGAGTTTTTACTGTCCTTCACCCATACCTCTCCCACCTCCACCCCACAATGAATGTATTTATTGTGAGAATGGCTGTACTTCTTCAGGAATGCCCCCACTCATCACCCAGGTGGGTGGAACAGGCATGTGATGGAATGGGGAGCCTGGGCTCTGCTCCTCCTGACATTGGCTAATAAATGCCCTCTTTCCCCACA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000025207:ENSMUST00000026225:14
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.409 A=NA C2=0.453
Domain overlap (PFAM):
C1:
PF0143720=PSI=PD(28.8=68.2)
A:
NA
C2:
PF138951=Ig_2=WD(100=31.0)
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:
CTGTGAGGGCAGCAGGGAT
R:
CTCATGTCATGTGCCAGCTGT
Band lengths:
354-2281
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