MmuINT0111266 @ mm10
Intron Retention
Gene
ENSMUSG00000020019 | Ntn4
Description
netrin 4 [Source:MGI Symbol;Acc:MGI:1888978]
Coordinates
chr10:93738884-93741221:+
Coord C1 exon
chr10:93738884-93738952
Coord A exon
chr10:93738953-93741050
Coord C2 exon
chr10:93741051-93741221
Length
2098 bp
Sequences
Splice sites
5' ss Seq
ATGGTGAGT
5' ss Score
10.13
3' ss Seq
TTGGAATTCTGTCGTTACAGTGT
3' ss Score
4.19
Exon sequences
Seq C1 exon
GTAAATGTGAATGTAAGGAACAGGTGTTAGGAAACCCCAAAGCCTTCTGTGGAATGAAGTATTCATATG
Seq A exon
GTGAGTGGGAATCCTCGAAGCTTGGGTATTCTCTATTCAGACTACGAACAGAGGTTTCTAAGGAAATGAGGTGCCTGGCTGATGTAATCCCATAATGCATCAGATGCTTGGGCAATGGGAAGAAGGCTGTTTATGAGGCATTAATTAAAACTGGTGGTGGTGCAGGCCTTTAATGCCAGCACTCAGGAGGCAGAGGCAAGTGGATAGATCTCTGAGTGTTTGAGGCCAGCCTGGTCTACAGATGGAATTCCAGGACAGCCAGAGCTACCCAGAGAAGAAAATAGAGCTTCTCTAAATAATTACTATCTTCAGATTCTAAAAGGCTCTGTAATCATAGTGTGCTACTCTGTATACCAGTGAATTAGTTAACTGCTTTGGCTCCTGGCGGGTCTCACACATGATGTACCTGCCCAAGAGCTCTCTGGATTCTCCAATGAAAGACAGACAGACAGACCGACAGACAGACAGACACACACACACACACACACACACCAGCTAATTTTGTTATGCCTTGACTAGCTCAATGGCTGAGCACTTCTAAACCTCCCTGCACACAGCCAGCATTCCTGACTTAACACCTTTTAAATCTATATTTTATCTTATTGCTCTGGCTCCTTCTGGGCAGCCCCCTTATCTTTGCTGCCCAAGATGCTCTGGGCAGCCTTTCTGGGGGCTGCATTTCTTCTTGTATCTACATTTTGGCCATTACTCCCTCCTGTTCCTTCCCAGCATGGTCCTTCCTATTCCCTTCTCCATGATATCCTTTCTCTCTCCTCTCTGGGTTTCTTCTCTTGGGAACCTAGAAGCCCCGCCCCCATCCCTCTCTCTGCCCAACCATTGGCCATTGGCTCTTCTATGATCAATCAAAAACCAATTGGGAACAGGGACTTTCAGCGTTTGAACACACAGATCGGGAGATTTGGGGGCCAAATCAAGTAGGTATTTTGATTACGGAGGAATGATGAATGTTTGAACTGGTCAACTGACTCTGTTCTACATTTTACAATGTATATATTAAAATATTACATAGGATTTCATAAGCATGTACTATATCTATGTGTCAACTTAGAAATATTGCTTAATTATTAAAAATTAAAAGAAGGGTCTGGAGAGATGGTTCAGCAGTTAAGAGCACGTGCCAGTCTTCCAGAGGACCAGGGTTCAGTTCTCAGTTTGCACACAGAAGCTTATAACTGTCTGCTACTCTAGCTCAAGGAGGGGATCTGATGCTTTCTTCTGGCCTCCCTGGGCACAAGGCACACACGTGGTGCACATACATACATACATACATACATACATACATACATGGAGGCAAACACTCATACACATAAAGTCAAAATAAATAAGTTTTAAAATAAATCAACTGAGAAGAAGACTGCAGCCTCTCCAGCGTGTAGGACAGTTGACCTCACCTGGTCAGCTTCAATTGCACTCCAAGGAACAGTATATAGGCAATCATGTTACATAAGCTCTGTAGAGGGATGGAAGATACACTCAACCAAAGCATTTTGTTCTCTGCCATACTATCATACACAGTCAACAAAAGAAGTACAATAGGATCAGAATCTAGATAAAAACCTGGACAATAGTTCTACTTCCTATTTATTCTCTCTCTGTAGATTTGATATATCAATATACTTTTTTGTTTTGATTTTTTTTTCCTTTCTGGGTCAATGTTTCTCTGCGTAGCCCTGTCCTGAAACTCTCTCTGTAGACCAGGCTGGCCTTGAACTCATAGAGATCTGCCCACCTCCACCTCCCAAGTGCTGGGATTAAGGTGTGTGCTACCATGCTTGGCTCAGCTGAATATACTTAAAATTGTATTTGCAGTAGGCGATGGTTAATGTCTTTCCAGTGTCATAATACTGGAGGGGGCAAAGGTTGAAATTTCCCAATAAAGAGAAAATAAAATGTAAATGAGATTAAATCACTGCAAGGGTGAATGAGCCTCATGACCTTAAAAGCAGGTTTCTGTATCCTGATTTTCCTCAATTCGCCCTTCCCTCACACTTGGAAATGACTTTAAATAGTTACAATTTCAACAGAAAAATGAAATCTGTATGCTTTTTTTTTTAAGTTTGGAATTCTGTCGTTACAG
Seq C2 exon
TGTTAAAAATCAAGATCTTATCAGCCCACGACAAAGGCTCCCATGCCGAAGTCAATGTGAAGATTAAGAAAGTCTTAAAGTCCACCAAACTGAAGATCTTACGAGGCAAGAGAACGCTATACCCAGAGTCCTGGACTAACAGAGGCTGCACCTGTCCAATCCTCAATCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000020019:ENSMUST00000020204:8
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=0.000
Domain overlap (PFAM):
C1:
PF0175916=NTR=PU(9.3=41.7)
A:
NA
C2:
PF0175916=NTR=FE(52.8=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:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
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