BtaINT0104238 @ bosTau6
Intron Retention
Gene
ENSBTAG00000045625 | NTN3
Description
Bos taurus netrin 3 (NTN3), mRNA. [Source:RefSeq mRNA;Acc:NM_001206905]
Coordinates
chr25:1978341-1978769:+
Coord C1 exon
chr25:1978341-1978529
Coord A exon
chr25:1978530-1978619
Coord C2 exon
chr25:1978620-1978769
Length
90 bp
Sequences
Splice sites
5' ss Seq
GGGGTGAGC
5' ss Score
5.97
3' ss Seq
TGTCCCACTTCTGTCCTCAGCCT
3' ss Score
8.35
Exon sequences
Seq C1 exon
CTTGCTCCTGCAATGGCCATGCCCGCCGCTGCCGCTTCAACATGGAGCTATACCGACTGTCTGGCCGCCGCAGCGGCGGTGTCTGCCTCAACTGCCGGCACAATACCGCCGGCCGGCATTGCCACTACTGCCGGGAGGGCTTCTACCGAGACCCCGGCCGTGCCCTGAGTGACCGCCGCGCCTGCAGGG
Seq A exon
GTGAGCCTTCAGCCAGCCACCTGCACGCCTCACCCTCCCAGGTTTCCCCAACCCCAGATGGGCTTCTGACTGTCCCACTTCTGTCCTCAG
Seq C2 exon
CCTGTGACTGTCACCCTGTTGGTGCTGCTGGCAAAACCTGCAACCAGACCACCGGCCAGTGTCCCTGCAAGGATGGCGTCACTGGCCTCACCTGCAACCGCTGTGCCCCTGGCTTCCAGCAGAGCCGCTCTCCGGTGGCACCTTGCGTTA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000045625:ENSBTAT00000063051:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.039
Domain overlap (PFAM):
C1:
PF0005319=Laminin_EGF=WD(100=95.3)
A:
NA
C2:
PF0005319=Laminin_EGF=WD(100=94.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCGGTGTCTGCCTCAACTG
R:
GGTGGTCTGGTTGCAGGTTTT
Band lengths:
167-257
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]