BtaINT0104251 @ bosTau6
Intron Retention
Gene
ENSBTAG00000044132 | NTN5
Description
netrin 5 [Source:HGNC Symbol;Acc:HGNC:25208]
Coordinates
chr18:55748666-55751101:-
Coord C1 exon
chr18:55750450-55751101
Coord A exon
chr18:55748816-55750449
Coord C2 exon
chr18:55748666-55748815
Length
1634 bp
Sequences
Splice sites
5' ss Seq
TGCGTAAGT
5' ss Score
9.73
3' ss Seq
CAGCTCCTCTCCTCACGCAGCCT
3' ss Score
5.96
Exon sequences
Seq C1 exon
GTACTTGCCTCTGCTGGAACCATGCCCGTGACCTTTGCCCTCTGGCTCCTCCTGAGCCAGGCCAGCGCGGACCCATGTTACCACCCCGGGGGCCGCCCCCGCTTCTGCCTCCCACCCGTGACCCAGCTGGCTGGCATGGCCGCCTCCTGTCCCCAGGCCTGTGGCCCCTCCCCGGGCGTGGATCTCGGCCCACGGGCCCCCTGCAATGGCAGTCTGACCCTGGGCCTGGGGGGCCCTTTCCTCCTGTCGTCCGTCAGCCTGCGCTTCTGCACCCCAGGACCCCCAGCCCTGGTCCTGTCTGCCGCCTGGGCCACCGGAGGGCCCTGGAGGTCACTGTGGCGCAGGCCCGCCTGGCCGGGGGTGTTGGGAGGGCCCGAGAGGGTGATCTTCCGGGTCCCAGCGGGCCCGAAGGCCAGCGTGGTGGCCAGTCACCTCCGCCTGGAGCTCGGGGGCCGGGGAGGGCTGGCAGCCGCGGGCGTGAGAGGCCGCTGCCAGTGCCACGGCCACGCGGCCCGCTGCGCTGCCCGCGACCGGCCACCCCGCTGTCGCTGCCGCCACCATACCACCGGCCCGGGCTGTGAGAGCTGCCAGCCATCCCACCGCGACTGGCCCTGGCGGCCTGCCACGCCCCGGCACCCTCACCCCTGCCTGC
Seq A exon
GTAAGTCCGGGGCCCACCCTGACCTGCCCTGACCCGGAGCCGGGCCCATGGTCCAGCAGCCAGGCAGTGTCCCTGAGGGCAGGAGGCTCTCTCCTACCCCAGAGCTACCTGCCCCTTGCTTCTCCCCCACACTGTCCTCTGGCAGCACCTCTCTTGGCTCCCCTGGCTTTCCCCCACCACCTCTGCTGCTTCCATGCCCACCGGGGGCTCCAGCCTCTTGGTGACACCTGATCACGGTGATGTGGAGAACACTTTCTGAGCCCCGCCCAGGGCCTGGCTTGTCGCAGGCGCTCAGGTGGTATTTAGTGAGAGGCTGGAGAAAAACAGGGCAGCTGGATGTTTTTGGACTCATCAAATCAACCATGGTGGGGGAAGCTTTTATTCATCAGACACATTTTTATCCAGCACCTACTATGTACCGGGCAGGGATTGCATCAGGCCCATTTTACAGATGAGGAGACTGAGGCTAGAGCTGGGAAGTTCTGTGCACAAGGACACGCAGTCAGCAGGTGGCAGGGCTGGAACGTGAGCTCAGGAGGATAAGCCCAAGGGTCCTGGCTTGTCCCGAACGTGCTGTCACACTAGATGTTCTAGGGCAGCAGATGGGCGCACAGCCTCAGGAGGCAGCCAGACTGCTTGGGTTCAAATCCCAGCTCACCAGCTTCCTGGCTGTGTGACCCCCAACTAGTGACCAAACCTCTCTGTGTCTCCATTTCCTCGCCTGTAAAGTGAGGAAAACAACAGTCTTTCCTCTACAGGCTGCAGTGGAAATTCAAGTCACGGATATACATAAAGTCCTTAGGACCTAGCACGGAGGTCCTGTGTTGCTCTTTTTAAATGTTTCCCCAGTAATTCCAATAAGTGGTCAGGTTTGAGAGTCACTGCCTTTGAAATCTGATCAATGCCCCCCAGCAAAATGTACATGGTAGGTGGTCCTCCTGCGAGGAAGTAGATATTGTAAATGTCATCTTATAGCAAAGGAGTCTGAGCTGCAGAAGGGAGGCGTCGCCTGCCCATGGAAAGAGTGAGACACTTCCACGCGGGGGTCTGACTCTGTAGCCCACTCTCTACACCCCGTGTGTTCATCAGTCCCCTTGGCTCACCCAGCTCCAGTCCAAAGCACCGCCTGTTTTAAAGATGAGAATGAAGGGCTTCGGGGACCCAGACTCACCTGGGGAACCCCAGGCAGTCTCTCTCCTGAGGGCGGTGGGGGGAAAGCTGGGAAAGGGGAACGGAATGGCGGCCTGAGGCGCCCTCACTCCATCCTGTTCCCAGCCTGCTCCTGCAACCAGCACGCGCGACGCTGCAGGTTCAACTCTGAGCTGTTCAGGCTGTCGGGCGGCCGGAGCGGGGGCGTTTGTGAGCGGTGCCGCCACCACACAGCCGGCCGGCACTGCCACTACTGCCAGCCAGGGTTCTGGAGGGACCCCGGCCAGCCCATCAGCAGCCGCAAGGCCTGCAGGGGTGAGTGCAGCCTGAAGCCCCGCCTAGAGGGAAAGGCAGCAGGCAGGTCTGTGGGAGGAGGGGCTGGGGGCCTGCGGGCGGAGGCGGCAGGGAATTCCAGCCTCCCCAGTCTTGGGGAGGAAGAGGCTGGGAGCCCGCACCCTACCTCCCCAGCTCCTCTCCTCACGCAG
Seq C2 exon
CCTGCCAGTGCCATCCAATTGGGGCGACAGGCGGTGCCTGCAACCAGACCAATGGGCAGTGCTCCTGCAAGTTAGGGGTCACTGGCCTGACCTGCAACCGCTGTGGTCCCGGCTACCAGCAGAGCCGCTCCCCCAGGATGCCCTGCCAGC
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000044132:ENSBTAT00000063836:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.016 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0005319=Laminin_EGF=WD(100=25.1)
A:
NA
C2:
PF0005319=Laminin_EGF=WD(100=96.1)
Main Inclusion Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAGAGGGTGATCTTCCGGGTC
R:
TGACCCCTAACTTGCAGGAGC
Band lengths:
358-1992
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development