BtaINT0086275 @ bosTau6
Intron Retention
Gene
ENSBTAG00000020895 | LOXL4
Description
Bos taurus lysyl oxidase-like 4 (LOXL4), mRNA. [Source:RefSeq mRNA;Acc:NM_174384]
Coordinates
chr26:19212845-19214150:-
Coord C1 exon
chr26:19213931-19214150
Coord A exon
chr26:19213029-19213930
Coord C2 exon
chr26:19212845-19213028
Length
902 bp
Sequences
Splice sites
5' ss Seq
GAGGTGGGT
5' ss Score
7.07
3' ss Seq
GCCGGGTGTTCTCCCAGCAGGAG
3' ss Score
7.24
Exon sequences
Seq C1 exon
ACTGAAGAGCCTAACGAAGAAGAATTCCTTCTGGATCCACCGTGTCAACTGCCTGGGCACAGAGCCCCACATGGCCAACTGCCAGGTGCAGGTGGCGCCAGCCCAGGGCAAGCTGCGGCCAGCCTGCCCGGGTGGCATGCATGCTGTGGTCAGCTGTGTGGCAGGGCCCCGCTTCCGTCCTCCGAAGGCGAAGCCAGGGCGCAAGGAGTCCAGGGCAGAG
Seq A exon
GTGGGTCCCCAGGGCCCTGCCCGCAGGCCTGGAGGCCCAGGCCCCACTCACAGGACCCTGCTCCATGGGGAGGGACTGACTGGTGGGAGGGGACTCTCCAGGAGAGTCAGGGGAGAAGGGGGGTGAACCCCTCATCAAGGGGACATTGGTTCAGACCAGGAGGAGAGCAAGTCCCAGAATGGTTGAACTTTGGGATTTATTTAAAAGGGCCCATTTATAACCCTACCATAAATGGAAAGCTGACATCACTGGCCAGGAATAGAAGGTAACTATAAAAAGTGTAATTACACTGTAGCTGCATCCCATTGAGGGTCTAAGGTATTGAGCCCGAGCCTGGCCCTCGTTATAAAAAGCAAAGACCAAGAGCTCGGGAGGCGTTGCAGGCCGACGTCTGCACGTGAGAGGGTCTCCTCACGGTGCAGGAAGGGATGGGAGAGAATTAACGGAAATGACTTCCCCACCAAGCGTTTCATTAACACCACGCGCCCGCAGGTCTCTAAAATCATTTCACAGATCTGCTGGGGAAGTGTTGCTGTAGGTTCAGCCCCGAAGGACAGAGCATCAGTGAGGCTGGGTGAGAGGAAGGGACTTGTCTAGTGATTAGGTGGCAGGTTGTGAAGCCCAGGAACCCCAACTCCCGAGGCTGGAATTTGTTATTACATTTATTGTTACTGTTATTACGTAACAATTTATGAATTTGTTATTACTATTATTATTGTTGTGGTTCTTTGTTACTGAGGAAGGGGGAGAGCATTGAGGAGAACGACTTATTCAAGGCAATGGCTGCAGGAGTCAGAGATGAGACTAGGACGCCAGTCCTTGGCCCTGCCTGAACTGAAGGGGCGCAGCCCCTATGCCCGCCTCCTCCTCACCCTCCCTGAAGCCGGGTGTTCTCCCAGCAG
Seq C2 exon
GAGATGAAGGTGCGCCTCCGCTCGGGGGCCCAGGTGGGCGAGGGCCGGGTGGAGGTGCTCATGAACCGCCAGTGGGGCACCGTCTGTGACCATGGATGGAACCTCATCTCCGCAAGCGTCGTGTGCCGCCAACTCGGCTTTGGCTCTGCTCGGGAGGCCCTCTTTGGGGCCCAGCTGGGCCAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000020895:ENSBTAT00000027838:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.311 A=NA C2=0.129
Domain overlap (PFAM):
C1:
PF0053013=SRCR=PD(82.8=71.6)
A:
NA
C2:
PF0053013=SRCR=PU(56.1=88.7)
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:
TTCCTTCTGGATCCACCGTGT
R:
GCAGAGCCAAAGCCGAGTT
Band lengths:
345-1247
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]