MmuINT0111258 @ mm9
Intron Retention
Gene
ENSMUSG00000079662 | Ntn3
Description
netrin 3 [Source:MGI Symbol;Acc:MGI:1341188]
Coordinates
chr17:24340791-24344227:-
Coord C1 exon
chr17:24344153-24344227
Coord A exon
chr17:24343893-24344152
Coord C2 exon
chr17:24340791-24343892
Length
260 bp
Sequences
Splice sites
5' ss Seq
ATGGTAGGC
5' ss Score
7.42
3' ss Seq
TTTCCACGCCCCCCCCGCAGCGG
3' ss Score
10.26
Exon sequences
Seq C1 exon
ACTGTGAGTCACATTGCAGACCTGCGCGTGGCAGTTACCGAATCAGCCTGAAGAAGTTCTGCCGGAAGGACTATG
Seq A exon
GTAGGCTGCCTCACTCCAGCTCTTCCATCTCGCCCCCAGCTCCTTTGAATACCTTGACCCTGGCTGTACTTCAAGGCTCTTTCTTTCCTCGGGTCTCCCACTGATGCGGGCTTTGGCAGCTATGTCTTAAGTGTACCTCCCTCTAGTGGGTGACCTCTTCATGTCTCTCCTAAGCCATTTGGACATTCTATGCTTCTCTATACAGACCCCTCCGGCCCTGCCCCACTTAACCTGATCGCTTTTCCACGCCCCCCCCGCAG
Seq C2 exon
CGGTGCAGGTGGCAGTGGGTGCACGCGGTGAGGCCCGCGGCTCGTGGACACGCTTTCCGGTAGCGGTGCTTGCTGTGTTCCGCAGCGGCGAGGAACGCGCTCGACGCGGGAGCAGCGCGCTGTGGGTACCAACTCTAGACGCGGCCTGCGGTTGCCCGCGCCTCCTGCCCGGCCGGCGTTACTTGCTGCTGGGAGGTGGGCCGGGGGCTGCAGCTGGGAGCACAGCGGGCCGGGGACAGGGGCTCAGTGCTGCCCGTGGAAGCCTCGTGCTGCCTTGGAGAGACGCCTGGACCCGGCGCCTGCGGAGGCTGCAGAGGAGAGAGCGGCGGGGGCGCTGCGGGACCGCCTGAATCTGCAAGCTGGGCGTGGACTGGGCGGACTCAGCTCTCTTATCACTGGGCGCGGCGCGTTCATCAGAGCACTAGGCTGGAAGTGTCACGTGCATCGCCATCTAATTTCCCCCTACCCCCATCCCCGCTTGAAACCTATTTGGCGATACCCTACCCCCAACTTAGAGGAGTATGATGGCCCCTAAGAGCTATCTGGAGGCTCCTAGGGCAGCTCAGAGGACCCTGATCTTATCCCTCTTGGCTGATACCCGACGTCTCTTAAAGGTGTGAACCCGCCTATTCCCAGGGGATGCTAGGATGATCCCTCTGGGGTTTGAGCACATCCCACGGGCCAATGTGATTCATCAACTCTCTGATGCTGTGATACACTAGAGTTCTCCAACCTCTCCAAAACCACTGTTGCCACCATAATTGCCTGTACACCGCTGCAGGGGCTGTGGCTCAATTGCACAGCCAAGACAGCGACGTCTCTGCCCTCCAGCCGGGAATGTACAAAGAGTATTGTAGGCTCCCCTGTCCAGTGTCATGGATCTTGTCCCCATATCCATTCTGGCCTGCCTCTGCCGGTCACGTGACCGTGTCCCCATCCGCAGCTGCATCACTGCCTGTGTCCCATATCTTTCTTGTTCCGTTGTACCCTTTTCTGGGGTCCATCCAGCTGTCGCTTTCTACCACGACTCCTACCAGTCTTGGCCTCTTGGCTCCATGACACAGGTCCTGCCCCTAGCTAGGAGCCCTACACTCTATCCGCTCAAGACTGGACGTCGAGAAGGGGCAGATCAGGTCCACGTGTGACCGGACCAGAGGCGACTTCCACGGGCAGCCGTCGGAGTTCTAGTCGTCCGTGACTTTGCCTTACACCAGGCGCTAGGGTCCCCACCTCTTTAGGCGAGCCCCCGCCCCTTAGCGCGGGAACCGCTGTTTGGCTAGCGCATGCTCCCGACTTGGCCGCCGCCGGGCGCAAATGCGCATGCTCAGAGCCGGCAGCACTGAGACGCGGGGCACTCGGGGTGGGCAGCCCGCAAGCGCGTGCTTGTGGGGCGGGGCCGCCTACGCGCGTGCGCAGAAAGTCCAGTGCGGTCCAGCGGAGAGCCGAAGGGAGAGGTGCGGTGCGGCGCGCCGAGGTGGGTGCGCGGCGGGGGCGTGGCGGCTGGACGCGGGGTGTGGGGGTGTCACTGCCACGGTGCGCTGACCGGCGGCACGGATGTACTGAGGGAGGGGGGCACGGGTTGTGCTCCGTGTCTTGGTCGCTGCGGGTTAGGGGGCTCCAGAGTCTAATGCTGCGTGCGTGACGTGGGCCCCGGAGTCAGAACCCTTTGGGCAGGCCCGGCTTTCCTCGATCATCCCTGCCTTCTCTGGGCTCTGTGTCGTGGGCAAGAACTGCCTCTGTGTCAACCTTCCCTTGGGGCACTTTCCGTCCCTGCGGAATAGGAAATCCTCTTTCTGTATTCGTTCGAAATTGCAGCAGTGTTCATATACCTTTGCCCTCGGAGACCTGCAACAACCCAGGCCCTTCACTTGCCAAAGATGACACAACTGCCCACCTGAAGCTTAGGGACTTTCCCAGCCTGAGAGCCCTATCCAGCCAGTGTCCCTGACATGCCTTGGTCACCTGTGCCTTAGCTTGGCCCTGTGCTTCAGGAGTTTTGAATAACAGCTGGAGGGCAGAGCTGGCACCACACGGGGTGGGCTGCACATGACAGAAGTCAGTCTGCTGGGTGCTGGCAGCCTGACCACAGATTTTCCTTGACAGACCTGACTCAGTTCAGAAATAGTGCTCTGGCCTTCTTGGATGGGGACTCACTGGGCTAACTTTAAAGGCCAAAGATTGTCTAGCCCAGCCCGGACATATGCAGGCATAGGTTGGCCATTTGGGCGGTTGTGTTGCTGTCTTTCCAAGGTAAATAAAGGATTTTCCTTGTCTCACCATGTTCTGCTGGAAGGTCAGCAAGCTACTCCCAGGCAGTTGGTACAACTGTCCCATGGCATGCGTTGCCATGTCATCTACTTGGGGACAATGACTCCATTCTCATTTTCACACCCCTGTCCCCAATAGGCACCTGTCATTGTTCACTGAATTGTTGTGGAGATGGCTGTATTTGTGTTCTCTCAAGCTCTATCTGATGTCAGTTCTGGGTTGGTGTCAAGACCAACCCAGACGACAAATGGTTAAGAAATTTCAAATATTTGATAGTGACCATTCATATTGAGTGCTATGAGGGCTCTGTGTGCTTCCTTGATGATTAATCCTCACCTAATCTCCCCAGTACTCAGATAAAGACTTAGGGTAGTGACAGCTGTATTTAGAATCTAGTCTGCGTGTGGATAGGCCTGGAGCCACATCGTGTTGTCCCTGTTCCCCCATGGTCTGGCATTCAGTTAGCCAGGCACTCTCTTAAGTGCTTGTTGGAGGGAATAAAGATGCCACTTTTTGAATGCTACATGTCAACTAGTGAACTAGCAATGTAGTGGCTTTTGGCTGGATTAAGGGTGACCTTTTGGGTTTGCAGAAGTACTCTAGTAATCTAGGTAGGGTTTTCATAACAACAATCAAATTTACCTCCCTGGGAGTGCAAACTCACCTGCCTGTGTTCCCTACTAGCTCTGAGTAACCACCCTTGCCAGGACTGTCTGGCAAGTCTCAGTGACCTTGGGCACACAGCATTGCTCCTAATCCTTATTAGAGACTGAGCCAACCTCTGAAGACATAGTAAAGTGTTTAAAGTACACAAGACAATGAAGTGGGTTGTAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000079662-Ntn3:NM_010947:5
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.078
Domain overlap (PFAM):
C1:
PF0175916=NTR=PU(7.0=30.8)
A:
NA
C2:
PF0175916=NTR=PD(92.1=89.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGCAGTTACCGAATCAGCCTG
R:
CTTCCACGGGCAGCACTG
Band lengths:
308-568
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: