BtaINT0104241 @ bosTau6
Intron Retention
Gene
ENSBTAG00000045625 | NTN3
Description
Bos taurus netrin 3 (NTN3), mRNA. [Source:RefSeq mRNA;Acc:NM_001206905]
Coordinates
chr25:1979123-1979953:+
Coord C1 exon
chr25:1979123-1979197
Coord A exon
chr25:1979198-1979538
Coord C2 exon
chr25:1979539-1979953
Length
341 bp
Sequences
Splice sites
5' ss Seq
ACGGTAGGC
5' ss Score
8.81
3' ss Seq
CCTCTCGCCTCCCCCCGCAGCGG
3' ss Score
11.14
Exon sequences
Seq C1 exon
ACTGCGACTTGCACTGCAAACCCGCTCGTGGCAGCTACCGCATCAGCCTGAAGAAGTTCTGCAGGAAGGACTACG
Seq A exon
GTAGGCTGCGCTCTGGCCTCCCACCCTCAGGCTTCCTACCCGACCCCCGCCCCTTCTCACCTTGCCCTCCCTACTCTCCCTCTGGAGGTCCTGACCCTCGCTGGACCCTAAGGCCATTCCCCCGGTCCCTCAGCTCCTCCGCGCTCGCCGGCCCCGCCCTGCCAGCCCCCGGGGCCTCTCGGTGCTCCCGCTGCGGCATGTCCTCTTTGTGTTCCTCCTCCGCGCCCCCCACCCGCACGCGCACCCACACCCGCACCCCGGCTGGCGCTCTGTGAGCCTCGGCTCCCGCCCCCTCCGGGCCCCGCCCCGCCTGACCCCGCCCCTCTCGCCTCCCCCCGCAG
Seq C2 exon
CGGTGCAGGTGGCGGTGGGCGCGCGCGGCGAGGCGCGTGGCTCCTGGACGCGCTTCCCGGTGGCCGTGCTCGCCGTGTTCCGGAGCGGCGAGGAGCGCGCCCGGCGCGGGAGCAGCGCGCTGTGGGTGCCGGCGCGGGACGCCGCCTGCGGGTGCCCCCGCCTACTGCCAGGCCGCCGCTACCTGCTGCTGGGGGGCGGGCCGGGGGCCGCGGTCGGGGGCCCCGGGGGCCGGGGGCCGGGGCTCAGCGCCGCCCGCGGGAGCCTCGTGTTGCCCTGGCGGGATGCGTGGACGAGACGCCTTCGGAGGCTGCAGCGGCGCGAGCGGCGGGGGCGCTGTGGGGCTGCCTGAGCCTGCGGGCCGGGCGGGGGCCGGGCGGGCGCTCCCCACTCATCAAGGCTCACCTTCGTCCAGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000045625:ENSBTAT00000063051:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.069
Domain overlap (PFAM):
C1:
PF0175916=NTR=PU(7.0=30.8)
A:
NA
C2:
PF0175916=NTR=PD(92.1=89.7)
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:
CCGCATCAGCCTGAAGAAGTT
R:
CGAAGGCGTCTCGTCCAC
Band lengths:
342-683
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]