BtaINT0104250 @ bosTau6
Intron Retention
Gene
ENSBTAG00000044132 | NTN5
Description
netrin 5 [Source:HGNC Symbol;Acc:HGNC:25208]
Coordinates
chr18:55750450-55751319:-
Coord C1 exon
chr18:55751281-55751319
Coord A exon
chr18:55751102-55751280
Coord C2 exon
chr18:55750450-55751101
Length
179 bp
Sequences
Splice sites
5' ss Seq
TATGTAAAC
5' ss Score
-2.95
3' ss Seq
GCCACTCCTCTCCTCTGCAGGTA
3' ss Score
11.1
Exon sequences
Seq C1 exon
ATTCTCGATTTTGCTTGCGTTCTTTCCCCTTTGGCTTAT
Seq A exon
GTAAACAGTAATTCTCCCCAGATGGAACTATTTTCCTCGCTCAGAAGCAGCCGGGAGAGGTCTGGGGCAGGGCCAGGGGTGGAATGCCAGGGTTCCTCAGGGAGCCTGGAGAGCGGGGTGGAGGCTGACCTCGGGGGGCAGCCCGAGGCCCCCAGCCTGGCCACTCCTCTCCTCTGCAG
Seq C2 exon
GTACTTGCCTCTGCTGGAACCATGCCCGTGACCTTTGCCCTCTGGCTCCTCCTGAGCCAGGCCAGCGCGGACCCATGTTACCACCCCGGGGGCCGCCCCCGCTTCTGCCTCCCACCCGTGACCCAGCTGGCTGGCATGGCCGCCTCCTGTCCCCAGGCCTGTGGCCCCTCCCCGGGCGTGGATCTCGGCCCACGGGCCCCCTGCAATGGCAGTCTGACCCTGGGCCTGGGGGGCCCTTTCCTCCTGTCGTCCGTCAGCCTGCGCTTCTGCACCCCAGGACCCCCAGCCCTGGTCCTGTCTGCCGCCTGGGCCACCGGAGGGCCCTGGAGGTCACTGTGGCGCAGGCCCGCCTGGCCGGGGGTGTTGGGAGGGCCCGAGAGGGTGATCTTCCGGGTCCCAGCGGGCCCGAAGGCCAGCGTGGTGGCCAGTCACCTCCGCCTGGAGCTCGGGGGCCGGGGAGGGCTGGCAGCCGCGGGCGTGAGAGGCCGCTGCCAGTGCCACGGCCACGCGGCCCGCTGCGCTGCCCGCGACCGGCCACCCCGCTGTCGCTGCCGCCACCATACCACCGGCCCGGGCTGTGAGAGCTGCCAGCCATCCCACCGCGACTGGCCCTGGCGGCCTGCCACGCCCCGGCACCCTCACCCCTGCCTGC
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000044132:ENSBTAT00000063836:1
Average complexity
IR
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=0.016
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0005319=Laminin_EGF=WD(100=25.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Rat
(rn6)
No conservation detected
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:
TGCTTGCGTTCTTTCCCCTTT
R:
CAGGGTCAGACTGCCATTGC
Band lengths:
250-429
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development