MmuINT1024611 @ mm10
Intron Retention
Gene
ENSMUSG00000020902 | Ntn1
Description
netrin 1 [Source:MGI Symbol;Acc:MGI:105088]
Coordinates
chr11:68400385-68400823:-
Coord C1 exon
chr11:68400729-68400823
Coord A exon
chr11:68400643-68400728
Coord C2 exon
chr11:68400385-68400642
Length
86 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGT
5' ss Score
10.47
3' ss Seq
CTGTCCGAGCTCCTTCATAGCCC
3' ss Score
2.16
Exon sequences
Seq C1 exon
TTCTCCTTGGACAAGACCCTCTGCTCGCCCATGCTCATTCCTAGCTCCTGGCCAAACACTAATTTCTTCAACTCCCAGACCAACCCAAAGCTAAG
Seq A exon
GTGAGTGGCTGGTTTTCCCTTGGGTAGTTAGCGTGTCTCTAATTACGTTTGTCCAGTCCTCCATAACTGTCCGAGCTCCTTCATAG
Seq C2 exon
CCCCCAGTTTGAAGCTAACCTGACAGGCCGCAGGACCGGAGCGAGCCATTGAGATCTGGCAGCGTGACCCGTGAGCGAAGAACCGCGCGAAGGGCCGGGCAGGCGTGACACCACCTGGCGGAACCCCGGGGAAGAGTCTTAAAAGAGGGCGCTCCTCCGCTCCCGGAGCAATCCAGCAGGATCTACCCAGTGCTCACTTCCCTCCGCTGCCCAGCAGTCCCGTCCGCCCCAACCCGCCCCCACCCGCCCCCACCGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000020902:ENSMUST00000108674:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=NA
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NA
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCAACTCCCAGACCAACCCAA
R:
TAAGACTCTTCCCCGGGGTTC
Band lengths:
169-255
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- 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