MmuINT0111272 @ mm10
Intron Retention
Gene
ENSMUSG00000070564 | Ntn5
Description
netrin 5 [Source:MGI Symbol;Acc:MGI:2685330]
Coordinates
chr7:45692341-45694553:+
Coord C1 exon
chr7:45692341-45692421
Coord A exon
chr7:45692422-45693995
Coord C2 exon
chr7:45693996-45694553
Length
1574 bp
Sequences
Splice sites
5' ss Seq
ATGGTAAGT
5' ss Score
11.01
3' ss Seq
GAGGTGGTGTCTTCCCTCAGTTC
3' ss Score
6.46
Exon sequences
Seq C1 exon
ACCCACAGTGTCAAGGCTATTGCAATGTCTCCGTCAGCAGTGTGCACATGAGCCTTCAGAGATACTGTCAGCAGGATTATG
Seq A exon
GTAAGTGAGAGAGGAAAACAGGCCTGCCTTTTCCCCATCCTTCCACTTCCTTATTATAAATGGGAAAGGATGTTAGACCCTGAAGGACTGGTCTTCACCAGACAATGTTATCTGAGACAGAACAGCAGACAATGGTGGGAGACAGTGGGAGGAATCCCTGTTTCCTGTGTCTCCTGGTCCTCCATACTCTCACACTTGCTGTGCATCCTGTCCTTGAGCCTGACCTCTCTGAGAGCTGGAAGGAACGGAGGGATGGAGATGTAGAGAAGGCCCTGTCATATCCCTCCAGTCTCAGATCTGAGCCTTTGCCCCCCCCACCCCCACCCCTGCACAGCAGGGCCCAATACTGAGGCCCATGAGCTCAGCTCTCAGATACTCAGGGGTTGGGCCTAGCCAGAAAAGGATGGACCATTCCTGGTCACCGCTTTCTGTCCCAGAGCACAGGCTGCTTTGCCCCTAGGATCATCAACTGACTTCAGTGTCACCCGTCTTTGAGGTGGGGCTTCTCCTACTCACAGATCTGCCTTGCTAGCCAGCAACTAGCCCCGAGGTCTTCCTGGCCCTCCACACCACAGCACTGATTCACAGTAGCGTGACATCAGTCGAGTCTCAGGCCTTCCCACTCAATTCATTCTTTGGACCGCCAGTTTACCCCAGAGCCTTTCTGACAAGGCCCACCTCTCTGGAGGCTCCCACTCCTGGGAACCGGCTCACTGTGTAACACTAATGCTCTGGGCTTAGCTTAACATGCTGGTGCAAGCTCAAAACCTTCAGTTCTCAGGGGGCTGAGGCAGAGGGACGCCAGTGACTTCTGGATTGGCTTAGGCTACAGAGTAAGTTCTAGACCAGCGTCGACATTTTAGTGAGACCCTGGAATCTTGAGGCTACTGTTAATAGGAACATGACTCCAAGAGTCCCAGCCAGCATTATCTGACGTCCTTAGGATGCTCTCCCTGACTGATCTCTGGTGAGCATCCCTCTGGACCTCTGCCTCCCTCATCCTTCTTAATTTACTGCAACCCTAAAAACCCTGCTTCACATACTCTTCCTGATCCCATTTCTAGGCACGCACACACACACACCCAATTTCCCACCCTCCACCCCCATGTCCTGCAACTCACATGGCCCTTACAAGCACAATCTTGGATTTCTCCCCTCCCCCACTTCACATTCCACCAGCGTCCACCATCCTAAACCACAACATAACTCCTTCCCAACTTTGATCCTGGCCTCCCTTTAAACCAGTGGTTCTCAACCTTCCAAATGTGGTTCCTCCTGTTGTGGTGACCCTTTCAACCATAAAATTATTCCCGTTGCTACTTTATATCTGTAATGTTGCTACTGTTATGAATTGCAAACGAATTGCAACGTAAATACCTTTTTCCCAATGGTCCAAGGAGACCACTGTGAAAAAGATGGGTAGTCCCTCAAGGGGGTCACGACCCGCAAGCTGAGAACCACCAATCTAGGCCCTTGCCTGACCCTTCCCACCGCCACGTGACGGTGCCATCTTCATCAGGCCTGCCCTCCTCCGGGCTAGCCTCCCACTTGCCTGAGGTGGTGTCTTCCCTCAG
Seq C2 exon
TTCTGCACGCCCAGGTTTCAGCGTCGTCGTCGCAGCCGTCTGAGGCGGTGGGCCCCGAGTGGTGGCGGCTGGCCGTGCACGTGCTGGCTGTGTTCAAACAGCGTGCGTGGCCCGTGCGCCGCGGTGGCCAGGAGGCCTGGGTGCCACGTGCTGACCTAATCTGCGGCTGCCTGCGCCTGCGCCCTGGCGCTGACTACCTCCTGCTGGGCCGTGCTGCGCAGACCCACGACGACGACAACTATGACCCTGCGCGCCTCATCCTGAACCGCCACGGCCTCGCGCTGCCCTGGAGACCACGATGGGCCCGGCCGCTGCGGCGACTGCAGCAGAAGGAGCGCGGAGGTGCCTGCCGAGGCCTGCTGCCACCCACACGGAGCCCTGGGCCCAGGAACTAAAGTGAGCTACTAATGTAAGGTGTGAGTCCCCAGAGCCAATCAGAAGCTTCAGTGCCCGTGACGCCACTCCGCATGTGACGTTGCCTACGTTGGGACCGGAAGTGACTGCTTGGACCTGTGAGCCTTATAGGTTATTTGTCACAATAAAGGCTCATGTCTTGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000070564:ENSMUST00000182750:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.113
Domain overlap (PFAM):
C1:
PF0175916=NTR=PU(6.8=28.6)
A:
NA
C2:
PF0175916=NTR=PD(92.4=82.6)
Main Inclusion Isoform:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGTGTGCACATGAGCCTTCAG
R:
ATCGTGGTCTCCAGGGCAG
Band lengths:
343-1917
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