MmuINT0111268 @ mm9
Intron Retention
Gene
ENSMUSG00000070564 | Ntn5
Description
netrin 5 [Source:MGI Symbol;Acc:MGI:2685330]
Coordinates
chr7:52939784-52942195:+
Coord C1 exon
chr7:52939784-52939868
Coord A exon
chr7:52939869-52941550
Coord C2 exon
chr7:52941551-52942195
Length
1682 bp
Sequences
Splice sites
5' ss Seq
CAGGCAGGT
5' ss Score
2.53
3' ss Seq
TCTGCCACCTCTGTCTACAGGTG
3' ss Score
11
Exon sequences
Seq C1 exon
TCACTCCTCCCGAGAGCCCTCCAAGTGCTTCTCCTACAGAAGAGTGTGGGGATGACCGACTACAGGACACTCTTTTCTTCTCCAG
Seq A exon
GCAGGTTTGACCAATGGCTGGGCCCTAATAGCCAGGTAGGAGGTGCATGCTGAAGAGGGGCAGGCAGGCAGAGTCCCTTATGGATCCCACTGGCCCAGGGAATTTGGATGGGCCTGCCACTGAGAGGTAGGAATGCTGTAGGCCCAAACGGGCAAGGGCTAGTTTCTGCCTAACCCCAAGAACACAGAGAACTCACAGCCTGGTACTTCACGGTGTTGAGAGCCGGAAGGTGGGACCTTGAAATTACCTAGCAAGAAACGTGTTTACATGAGGGGCTGGGGTGGGGGAGGCTATGGGTGCATAATGGCTCAGACTCCCGGGGGCAGGGAGTCTATGGACTGGGCAAGGGAGGCACCCTGCCTGGGAAATGTCAGTGGAGCACAGGGCTCTGATGTCTGGAGGTAAGGGTACATGCAGGGGGCTCAGGAAAGTCCCAAGATCCCCAGTCCTATGTGGGGGAAGCTGAAAGCCTTAGTCCTCTGGCTCCTAGCACTCCTTAGGCTCTGGATTTCTGGTTTCTAAGTGCCTTGGCATCGGGCACACACCTTATGCCACCTCCTGCTTTTTTTCCTCCCATATCATCTACCCCCAGCACTGGCCCCCATCTGCTCGGGGGCTGAGTGCTTGTGGAGTGTGGAGGGATTTGGGTCCAGGTCTGAGATTTGGGGTAGCAAGTGGGGCCACCTCCCAGCAAGTCCCAGAAAAGTAAGTGCAGGGCCCCAACACCCTGAGCCCTAAAGGAAGGCCAGGCTCTGCCTTCCCAGTACCTGAGGGGTCTGCTCTCTAACTCCAAGGCTTTGTTGGTTTCCAGCTCCTTCAGCACCACCTTCCCTCAGCACTCTTCTCTGGCTACACACCTGGAGGGGAAAGGGTTAAGGGTGGAGGGCTGGAGTGGGTGGCAGAGAGGCCAGGGTTTTTTGGCAATAATCCGCCTTCCGTGCCCTGGGTGTGGAGAACAAGGTTAGAACCCCATGTGGGAAAGGCTTCCACTCTGACCCACGTGGGCCAAGGCCTCTTCTTCTGATTTTCTGCCAGGCAGTAGTAGCTCTCCTCTCCCTCTCGAGCCTCCCCTGGGCTTTCATGCCTGTCTCTGAGCCTACCTGCTCTTCCCTCCCAGCCCCAGAGCCTCTAGCTTCATGCCATCCAACTACCCAGCCGGACACCCGGTCCTCTGCCCTGCCCTGTCTAGCCTCCGGCTTTCCCCGGGTCTGTGCTGGACTCTGCTCCTCTTCTCTGTGGGCTTCCTCTCTCGGCCAGGCTCCTCCATCTCTTCTCTGTGGGCTTCCTCTCTCGGCCAGGCTCTTCCATCTCTTCTCTGTGGGCTTCCTCTCTCGGCCAGGCTCCTCCATCTCTTCCGTGACTCGCTCTCCTAGGTTTTCACATCTGTCGGTCCTGCTGGCTCCTCATCTCCCCTCACCCTCTCCCCAGGGCCTCTACCCCTCGACACTGATGGATAACTTTGGGGTGTTAAGCTCTGGATTAGTTCAGGCAAAATTCTCAATTTTGCTTGCGTTCTTTCCCTGTGGGTTATGTAAACAGTAATTCTCCCCAGATGGAACTATTTTCCTCGCTTCGAGGCAGCTGGGGAGGGGGCTCAGGCAGGACCAGGAGGAATGCAGGGTCTGCAGGAATCCTCAGCAGGGTGGACACCAACTGACCCCATCTGCCACCTCTGTCTACAG
Seq C2 exon
GTGCCGGCTCTACTGTGACCACGCCCATTACCCTCAGCCTCTTGCTCCTCCTTAGCCAGGCCACCTCAGACCCATGCTATGATCCAGGAGGGCGCCCTCGCTTTTGCCTCCCACCAGTGACCCAGTTGGTTGGCAAGGCAGCAGCCCCCTGCTCTCAGACCTGTGCTCTTCCTGCAGCCAGCCCTGGCCCTGCCTGCAACAGTAGTCTGACCCTGGACCTGGACGGCTCCTTCCTCTTGACATCTGTGACCCTGCGTTTCTGCACAGCGGGACCTCCAGCCCTGGTTCTTTCTGCTGCCTGGGCCACTGGGGGGCCCTGGAGGCCACTATGGCGTAGGCCTGCCTGGCCTGGGGCTCTGGGGGGCCCCAAGAAGGTAACCTTTCACTCCCCCCCAGGCCCCAAGACCAGGATAGTGGCCAGCTACCTCCGTGTGGAGTTCGGGGGAAAAGCAGGGCTGGTGACCACTGGAGTAAGAGGCCGCTGCCAGTGCCACGGCCACGCTGCCCGCTGTGCCACTCGGGCCCAGCCCCCACGCTGCCGCTGCCGCCACCACACCACTGGCCCAGGGTGTGAGAGCTGTCGCCCATCCCATCGAGACTGGCCCTGGCGACCTGCCACACCCCAGCACCCTCACCCGTGCTTGC
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000070564-Ntn5:NM_001033356:1
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.071
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0005319=Laminin_EGF=WD(100=24.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
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:
GAAGAGTGTGGGGATGACCGA
R:
CAGCAGAAAGAACCAGGGCTG
Band lengths:
344-2026
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
Other AS DBs: