MmuINT0111269 @ mm10
Intron Retention
Gene
ENSMUSG00000070564 | Ntn5
Description
netrin 5 [Source:MGI Symbol;Acc:MGI:2685330]
Coordinates
chr7:45686577-45691235:+
Coord C1 exon
chr7:45686577-45686825
Coord A exon
chr7:45686826-45691046
Coord C2 exon
chr7:45691047-45691235
Length
4221 bp
Sequences
Splice sites
5' ss Seq
TGCGTAAGT
5' ss Score
9.73
3' ss Seq
TGACCTCATCTTGTTCCTAGCCT
3' ss Score
6.54
Exon sequences
Seq C1 exon
GCCCCAAGACCAGGATAGTGGCCAGCTACCTCCGTGTGGAGTTCGGGGGAAAAGCAGGGCTGGTGACCACTGGAGTAAGAGGCCGCTGCCAGTGCCACGGCCACGCTGCCCGCTGTGCCACTCGGGCCCAGCCCCCACGCTGCCGCTGCCGCCACCACACCACTGGCCCAGGGTGTGAGAGCTGTCGCCCATCCCATCGAGACTGGCCCTGGCGACCTGCCACACCCCAGCACCCTCACCCGTGCTTGC
Seq A exon
GTAAGTCATGGGTCTTGCCCCCAATCCTTGACACTACTTGGCCCCCTGGGACAGCATGCCAACATACATTGACCCCTTGTTCCAAAGCATGCAAACTGTTCTCTTCCCTTCAGAAATGCTTTTCCTCCCTTGCTCTCACAGTGTGCTGTGGTCCGGTTCTCTTTCCTTGTTTGCCAAGCATGTCAGACACACAGACACACAGAGAAACACACACACACACACACACACACACAGGAAACCCTCTGTCAGGGACTCCACCCACCAGATGTAACCAGTAGGCGCACTAAAGCAGTCCTGGGAAGATCATATCCCAGGGTCTGGTGTGGCACTGGGTTTGGGCAAGGGTACAGGCAGACATAGTTCCTGACTCCTGGGAGAGCCGGCACAGGGGATATTTAATCATGAAACATTCTGATGGCCCACCAGCTGCCAGCCTACTGTCCTGTTGAGGAGACTGTAGCCATTATTCACTAACACAAAGCCACGCTGTATGACCTGCTATGACCATCTGCCCAGCTCCCAGTGGGTGCTGCCATACTAGGTGAGCCTAAACACAACTAGGAGCAGCTGTAGCAGACAGCCTGGCCCAGTTTCGGCTCCTCTGCTCAGTTACGTGGTCTCAGGCAAGGGACCTGACCTCTCTGTACCTGTTTTCTCATCCTATAAAGTGGCTTAAGAACACTGTCCTTAAGGCTGCAGAGATCCAGGGAGCCTCCTCTGAGCACCTCCATGAGTGACCTTCCCAGGTAAAAAGGAGCCTGGCAGGATGCAGAGCTAAGATGATTCTTAGGGACTTGTCTTCCTAGGTGCTGCCACCCCCAGAACACGCTCTGGCCTCTCTTCCTCCGGCCACACTGTCAGCTCTGTTGATTGTGACCGTGCCCTGATATTTTTCCCTCTTGAAGAAAGAAAGTATTTTAGTAGAGCCCACAGCTAACAGACTTAATTGTAAAGGGACTTTGAATTTTAAAAGAGATTGGATGTTTTAAAAGGATTGAAATTTTAATATGTAAGAATTTGCAAAGATTGTGGACTTTTAAAGTTATTTAGATCTTGGGGATGAATAAGAAAGTAAGGGTGAGAGAATTCTGCCAATTTCTAAGTATATCTATCCCAATTATCCATTCTGGGACTGGGGAAATGACCACAGGATGTGTCTGGGGACCTACTGGGCCTACTGTGAGTCAGGCATCAGTCAAAACTCCATTAATCACCTGTCCTCCATAAGCCCCTACAACTTTACCTGGAGGCCCACAATGTTTCTTGGGATCTCCTGGGACCAGTGTCAACTCAGAGCCAGTATCCAGCAGACCCCGGAAAGTCTGATTGTTTCCTTTCCCCCAGTGCAGTTACCCTTGTAAAAGGCCGCAGGTCCCTCTGGGGAAGAACTGGAGAAAGGCGAACAGCAAAACTTTTAGGTGTCTCATTGAGATCCTTCCTCAGGGGACCCTGGCCACCCCTTTAATCCGGGGGTTCTGGATCTGCAAACTGGCTCAAGTCTGGAAATTGATTCACTGGCCGAGATTGCCTTTTGCCACGATCCAATGTAGCCTTTCTTTCATTTGAGAATTTTTCTGCTTATACAGATCAAACAGATATGAAACAAACTTCTGACACCTTTTTTAACTGTGCAAGCTTCCATATTAAACCTAGAATCTCTACTCAGAGGACCCATGTCAATAAACTCAGCCTGCTCTAGTTTTATGCTCCTTCCACCATTATCCCACACCCTTAAAATCCCTTCCCACACATATTCCCCAGACTTCTGCTTGAATGAATTAGCAAACTCATTAAGCTCCTTAGTAGCATCATGGACTACACTTTCTACCTCCCCTCTAGGGGCCTGTTTTGCCTTGAGTCTGGCTATAGGTCTAGAAGAAACTATTGGTGGGCCTTGAGAAACATCAGTATTGTCTTGTCTGGCATTTTCTTCTGCGAAAGTCACTGTTGGTTTATCCGACTCTGGGGATTAATTCCCTCATGTGGGGAAGACATTATTACTTCAAGGGGTGGGGCTGAGGGTACTACTTCCTCAGGTGAGGCAAGCCCGTGAGAATCTGAAGATTCAAAATTCTCAGCTTCGACACATCCCCATCCCAAGTTTAGGAGCTCTGTCTGTGACCTTGGAAGGAGAGCTAAATACCTTCAGGCTCATGGGCAATTAATCCACTGACAGACAGACAGGTGCAGACAGACACACACACTTCTCAGATTTCAGGGAAACCAGTGTCCCAGCCTTCTGCCCTCCACCACCCCAGGGACCAGCAGAGGAGACCCACGTACCCTGACGCTGGGGTAGGCTTCATGCAGGGCTTGGACAGGGGCTGGATGCTAGGGAGGCTGTATCCCTGAGTGTGACCCATGTTAAGAGAAAGACAGTCCGCCCTGGGAACCTGGATGAGAGGCAGTGACACGTTCCTGTGGCTTTATAGCGGAGTGGCTTGACTGAGGGGGAAGTGAGACAAAGCCATTACCATGCTCTGGGTCAGAAAGGAGCTAGCACAGAGGCACTCGAGTCACCCTTGCCACTCAGAATCACCCAACCCCCTGGGAGACAGCAGAGAGCCTCCCTGGACAGGGAACAACAGAGGCTCAGGGGAGGGACTCATTTTCTCAAGGACATACAGCTACCCTTACCATAAGACTCCCCTGCTCTGCTCCAGGCCAGGCTCTCAGCCTCTAAGTCACATCTTTTCTTAGCATGGCCAGGTCTTCGGCTTTAACTTCTCTCTGGAATTCCTGGTAGAAGTACAGGCCTGTGGATGCTGGATGAGCCCTCAATTTATGTGGGTGGGGTTTTGTTGTTTTAGGGTTTTCTTTTCTTTTTCACAATGTCTCACCATGCAGTCTTCACGGCCTGGAACTATGTAGACCTGGCTGGCCTTGAACTCATGGAGATCCACCTGCCTTTTAATCCTGCGTGCTGGGATTAAAAGTGTGCCCACCACGCCCGGCAGGTTATGCGGTTTTCAAGACCTCTCCAGGCTCTCCTGCCCATCAGTCCTCAGGAGGCAGAAGCAAGGTCAGAAGTTCTAGGTCGGTCGGGGCTTCACGCGGGAGGAGCTCTCCCCTGAGCTGGTTCTCCTCCACCAGACAGACAGATACACCGGGTTTCCTAGTGTTTCTGATAAGCAGGGGGTGTGGGAGGCACAGAAGTCCTTGTGCTCACGGACGAGCACTGGGGGAGCCAGGAATAGTTACAACACGGGTTGTCTCTTCACAGGAAGAGATGTGTCACCCGCTTCCCACCCAGAAGGTTGGGAATGGACATGGTTGATATCCTGGTGACCTTTGCATCACCCCGGATCCTCCCCAGCACCCTCACCTCGGGGTTGTTTTCTTAGTTAAATCTTTGCAAAAGATTTTCACTTGTGCTTTACAAGGGGTTTTCACGTCTTAAGCTGCTTTGCACACAGGACTGGGTTCACTGTCACCAGGACACTTCACCACATTGTGCTGTGCTTAATTAACTATGCCTAAAATAAGCTACTCGGGGTCAGACTCTCAGTGTGAACCAGCGCCAGCTACCGAGTCATGTTGAACAGAACTATCTTCTTACCGCCCATGGATTGTTACCCAGCTGGCTGTGGTGGTCAAAGAGACCCCTGCAGTGGGGTTAGACAGTCACTGCCTTCAGGAATCTGAAAGATGCTCTCAGAAAAAGGCACATGTTTAACAAGCCTGTGGGCCCTGTGGAAGCTCACGGAGTGCTGACACAGCTCAGATGTTGCTTCTGGCTCTCTCGGGGGAGCACTGCCTTGGGCAGGTGACTTCACCTCTCTGTCTCATTCCCCCAACTGTGGATGGGGGTGGGGACGTCCTGGACGACATACACTTGGGCCATGGTGCCTAGTGCATCGGAGCACTATAGGCCTAGCACATGCTCTGGCCTAAGCGTTTATCTCAATCTCCCTGGACATAAACACAGCAAACGCCACCCCACAGTCTATAGAGGTACACAGCTATAGGATAGAGTGGGATTGACCCAACCCAGCCCATTCGTTCAGCACTATACCCTCCCAGGAGGGTCACAGGCTAACTGGTGACCCTTGGGATACCACCATTTATCGTGAGAATTAAGGTATCCTGGGAATGAGTCTCTAAAACCACAGAGCTGCGTTCTTTCCTGAGAACGGGAGGGTAGGAAGAAAGCTGAGGATGGGGGACGGATCTGGCCCTCATGTGCCTGGGTGACAGTTTCTGACCTCATCTTGTTCCTAG
Seq C2 exon
CCTGTTCCTGCAATCAGCATGCCCGCCGCTGCCGATTCAACTCCGAGCTATTCAGGTTGTCAGGTGGCCGTAGTGGGGGTGTGTGTGAGCGGTGCCGCCACCACACAGCTGGGCGGCACTGTCACTACTGCCAGCCAGGGTTCTGGAGGGACCCGAGCCAGCCCATCACTAGTCACAAGGCATGCAGGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000070564:ENSMUST00000182750:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.051 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0005319=Laminin_EGF=WD(100=63.1)
A:
NA
C2:
PF0005319=Laminin_EGF=WD(100=95.3)
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