BtaINT0104237 @ bosTau6
Intron Retention
Gene
ENSBTAG00000045625 | NTN3
Description
Bos taurus netrin 3 (NTN3), mRNA. [Source:RefSeq mRNA;Acc:NM_001206905]
Coordinates
chr25:1977342-1978529:+
Coord C1 exon
chr25:1977342-1978269
Coord A exon
chr25:1978270-1978340
Coord C2 exon
chr25:1978341-1978529
Length
71 bp
Sequences
Splice sites
5' ss Seq
TTGGTGAGG
5' ss Score
6.9
3' ss Seq
TGACCCACCCTTCCTCGCAGCTT
3' ss Score
8.05
Exon sequences
Seq C1 exon
ATGCCCGGCTGGCCCTGGGGGCTGCTGCTGACCGCGGGCACGCTCTCGGCCGCGCTGAGCCCGGGGCCGCTGGCCCCTGCCGACCCCTGCCATGACGACGGGGGCGCGCCCCGCGGCTGCGTGCCGGGCCTGGTGAACGCAGCCTTGGGCCGCGAGGTGCTGGCCTCCAGCACGTGCGGGCGGCCGGCCACGCGGGCCTGCGACGCTTCGGACCCGCGGCGTGCACACCCCGCCGCCCTCCTGACCTCCGCAGGCGGCACCGCCAGCCCGGTATGCTGGCGCTCGGACTCGCTGACGCAGGTGCCCCACAACGTGACCCTCACAGTGCCCCTGGGCAAGGCTTTTGAGCTGGTGTTCGTGAGCCTGCGCTTCTGCTCGGCGCCCCCCACCTCCCTGGCCCTGCTTAAGTCGCAGGACCACGGCCGCAGCTGGACCCCACTCGGCTTCTTCTCCTCCCACTGTGGCCTGGACTACGGCCGCCTGCCTGCGCCTGCCGATGGCCCAGCTGGCCCGGGGCCCGAAGCCCTATGCTTCCCCGCGCCCCAGGCCCAGCCTGACGGTGGTGGCCTGCTGGCCTTCAGCGTGCAGGACGGCAGCCCGCCAGGCCTGGATCTGGACAGCAGCCCGGTGCTCCAAGACTGGGTGACCGCCACGGACATTCAAGTAGTGCTCACAAGGCCTGCCGTGCTGGGAGACACCAGGGGCGCCATGGCCACGGCCCCTTACTCTTACTCAGCCACTGAGCTTCAGGTGGGCGGGCGCTGCAAATGCAATGGGCATGCGTCCAGGTGCCTGCTGGACCCCCAGGGCCACCTGACCTGCGACTGCCGGCACGGCACCGAGGGTCCGGACTGCAGCCGCTGCAAGCCCTTCTACTGCGACAGGCCGTGGCAGCGGGCCACCGCCCGGGAAGCCCACGCCTGCCTTG
Seq A exon
GTGAGGCCTTGGAGGGTGGCCTGGGGATCTGAGACCGGGCCGGCCTGTCCCTGACCCACCCTTCCTCGCAG
Seq C2 exon
CTTGCTCCTGCAATGGCCATGCCCGCCGCTGCCGCTTCAACATGGAGCTATACCGACTGTCTGGCCGCCGCAGCGGCGGTGTCTGCCTCAACTGCCGGCACAATACCGCCGGCCGGCATTGCCACTACTGCCGGGAGGGCTTCTACCGAGACCCCGGCCGTGCCCTGAGTGACCGCCGCGCCTGCAGGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000045625:ENSBTAT00000063051:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.142 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0005512=Laminin_N=WD(100=69.0),PF0005319=Laminin_EGF=WD(100=17.4)
A:
NA
C2:
PF0005319=Laminin_EGF=WD(100=95.3)
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:
CAAGCCCTTCTACTGCGACAG
R:
GTATTGTGCCGGCAGTTGAGG
Band lengths:
171-242
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]