BtaINT0104239 @ bosTau6
Intron Retention
Gene
ENSBTAG00000045625 | NTN3
Description
Bos taurus netrin 3 (NTN3), mRNA. [Source:RefSeq mRNA;Acc:NM_001206905]
Coordinates
chr25:1978620-1978987:+
Coord C1 exon
chr25:1978620-1978769
Coord A exon
chr25:1978770-1978936
Coord C2 exon
chr25:1978937-1978987
Length
167 bp
Sequences
Splice sites
5' ss Seq
TTAGTGAGT
5' ss Score
5.79
3' ss Seq
TCATCCTATCCTCCCCACAGAGA
3' ss Score
10.84
Exon sequences
Seq C1 exon
CCTGTGACTGTCACCCTGTTGGTGCTGCTGGCAAAACCTGCAACCAGACCACCGGCCAGTGTCCCTGCAAGGATGGCGTCACTGGCCTCACCTGCAACCGCTGTGCCCCTGGCTTCCAGCAGAGCCGCTCTCCGGTGGCACCTTGCGTTA
Seq A exon
GTGAGTGACGGTGCCCTGCTTGGACCACCTTTGCAGAGGTCACCCCAGCTCCGAGCTGCTGCCTACCTGGGCCCCGCAGATCCCCGGCTCCCCTCAACTGTCTCCTGAGCCCTGCAGATCCCCCTGACCCCCTTAAAATGCAGCCCATCATCCTATCCTCCCCACAG
Seq C2 exon
AGACCCCTGTCCCTGGACCCACTGAGGAGAGCAGTCCTGTGGCGCCCCAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000045625:ENSBTAT00000063051:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.039 A=NA C2=0.500
Domain overlap (PFAM):
C1:
PF0005319=Laminin_EGF=WD(100=94.1)
A:
NA
C2:
NO
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:
GTGACTGTCACCCTGTTGG
R:
ACAGGACTGCTCTCCTCAGTG
Band lengths:
187-354
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]