BtaINT0086280 @ bosTau6
Intron Retention
Gene
ENSBTAG00000020895 | LOXL4
Description
Bos taurus lysyl oxidase-like 4 (LOXL4), mRNA. [Source:RefSeq mRNA;Acc:NM_174384]
Coordinates
chr26:19206403-19207825:-
Coord C1 exon
chr26:19207582-19207825
Coord A exon
chr26:19206519-19207581
Coord C2 exon
chr26:19206403-19206518
Length
1063 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGC
5' ss Score
9.6
3' ss Seq
CAGCCCTGCCTCTTCCGCAGGCA
3' ss Score
8.44
Exon sequences
Seq C1 exon
GTGCCCCAGACCTCGTGATGAACGCCCAGCTGGTACAGGAGACGGCGTACCTGGAGGACCGCCCGCTCAGCCTGCTGTACTGCGCCCACGAAGAGAACTGCCTGTCTCAGTCCGCTGACCGCATGGACTGGCCCTACGGACACCGGCGTCTGCTGCGCTTCTCCTCACAGATCCACAACCTGGGCCGGGCCGACTTCCGTCCCAAGATGGGGCGCCACGGCTGGATTTGGCACCAGTGCCACAG
Seq A exon
GTGAGCGCCTGCTCGGGCCTCAGCCCTTAGGGGGCCAAAACCAGGGTGCGGATACCCAACCAGTCTGGCCCTTCCTGGGAGGGGTGGGTGTGAGCTCAGGGAAAGAGCCTTCCTTCCTAGACATGCTGTCAGCCCTGCCTCCAGGAGGCAGTGAGGAATCCTGAGCATCACCTGGCCTTTCCATTGCTCTCTTACCTGCCCTGTGGTATCCTATGGAGTGGTCCTCACCAGCAGAGCTGGTCTCTGTTAGAAGGATATTTCTCTGGGGGCCTTAAGCCTTGTCTTTAACGGCCAGGTGAAATGGGGACTCCTAGAAACCTGGAGACCCAAAATAGCCATCCCGTCCAGGATGCTAGCTCTGCAGAAAAAGCTGGTTGATTTCTGCAGCAGCAAAGCGAGGCCCCCAAGGAGGAGCAAGGAAATGCTGCTGGTGCTGGAAGGGGACAATGAGCATTCTTTCCTATCAGCAGCTTCCAGCCCGGACAGAAGGAGAAACGTTGTCTACAACAAAGGCAGAATGGAAAAGGGTGTTTTGTTTTGTTTTTTTTTTTCCTTCATATAGCCGTGGGTGTGGAAAGCTGAGAGGAGCGGGCAGTGACTTTGGGACTCGACTTCGCTGAGATAATAAGCATCTTTCCCTGTAGCATGGACGGAGTTGTCATTAGAACTGGACTGGAAACAATGGTAGCCATCTGGGCCCAGGCTGGCAGGGAGCAGCATTAGCGTCCCTCCACGCTCCGCAGCTCTGCTCCTGGGCTAGTCTCTGGTCGTGTCCCTTCCTTCCACCTGCAGGACTCTGGCCTCGTAGTCAGGCAGCATCTCCTGGAGCTTTGACCTCTCCTCACCTGGCTGAGACCCTGCGGGATGGGGGCAGCTGTGTCTGGCTGCCTGGCAGGAGTGCCAGGAGAGTAGGGTCATACTAATCTTGGGTTTGGGAGGGAGAAGGGCACTGCCCTGCTATTATAACGCTCCTCTCTGGGTAATGATGGGGCCTGGTGCCTCCGTCCTCCCTGCCGGCTCCTCTCCTGCTGCTGCCATGCTGACAGCCCTGCCTCTTCCGCAG
Seq C2 exon
GCACTACCACAGCATTGAGGTCTTCACCCACTACGACCTCCTCACTCTCAACGGCTCCAAGGTGGCTGAGGGGCACAAGGCCAGCTTCTGCCTAGAGGACACAAACTGCCCCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000020895:ENSBTAT00000027838:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0118612=Lysyl_oxidase=PU(38.7=96.3)
A:
NA
C2:
PF0118612=Lysyl_oxidase=FE(19.1=100)
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:
CCCCAGACCTCGTGATGAAC
R:
GGCAGTTTGTGTCCTCTAGGC
Band lengths:
351-1414
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]