BtaINT0086278 @ bosTau6
Intron Retention
Gene
ENSBTAG00000020895 | LOXL4
Description
Bos taurus lysyl oxidase-like 4 (LOXL4), mRNA. [Source:RefSeq mRNA;Acc:NM_174384]
Coordinates
chr26:19210423-19211799:-
Coord C1 exon
chr26:19211632-19211799
Coord A exon
chr26:19210586-19211631
Coord C2 exon
chr26:19210423-19210585
Length
1046 bp
Sequences
Splice sites
5' ss Seq
AAGGTAGGT
5' ss Score
10.29
3' ss Seq
GATGCTGGCTGTTTCCTTAGGAC
3' ss Score
7.95
Exon sequences
Seq C1 exon
GTGCGTCTGGCTGGTGGGCGCAGCCCCGAGGAGGGGGTGGTGGAGGTGCAGGTGGAGGTGAACGGCGTCCAGCGCTGGGGGGCCGTGTGCAGTGACCACTGGGGCCTCAGCGAAGCCATGGTGGCCTGTCGACAGCTTGGCCTGGGCTTTGCCAGCCATGCCATCAAG
Seq A exon
GTAGGTCTCTGCCATGCTAAAGCTGCTGACCCTTCATTCATTCAACAGTTAGTTATGAGTGGAACTATGCACCAGTGAATGCTGGGTGCTGGCGATCCTGTGGTGAACAAGACACAGTTCCTGCCTCGTGGAGCAGTCCATCCCCACACAGTCACGTGGGGGAGGCGGTTTTTCCTGAAGTGTTCATACAACGGGCACACAGCTGTATCTGCAGGAGAGATGAGCAGACATAAGCCAGATGAGGTGGGGAAGGAGTAAAGAGCCCATGTGAAGACCCTGTGGCCAGAGGACACTTGACTTGGTTGAGGAAATCAGGGGTGGAGTGTGGCTTCTAGAGTGATCGATCGGTGTGAAGTGCGAGGGTGGAAGAGGAGGCAGGAGCAAGACTGTTCAAAGCCCGCAAGGCAGATTTTTTTTAAAGATTTCTTCTTGCTATTTGGCAAACTGTTGGGGTGGGGATTACTGTGAATACAGAGGAGCACACTATTGCAGGTGCCCAGCTGAGAATGTTGCTGGCTTGGACGGGGCTAGTGGAAGTCCTGGGGGAGACAGGTGGATAGATTCAAAAGATATCAAGGAAACGAAATCAAGAGGCCTGGGGCAAGGCTGCTATGGAGAAACTGCTTCAGCTTCGCCCACAGTGGCCTGCCTGGCAGTACTGGGCACCCTTCACCCTGGAGAACTGGGCTCAACCCTGAGCACAACCGGCTATGTAGGGTTGTATGAAGAACAGCTAAGGAAATGGGACAGGTCTGAGCGGACAGGCATGGACCAGCACCATCGTCTTCAAACAGCTGAGGGCTGCAGTCAGGGAGAGTGATGGGAGCAAGGCCAGTGGTGGAAGCCACAGCAGTGGATTTTGCCCTCATACATGGAAGGCGTTTCTAATACCAGAGGGGTCCAAAGTGGCACCACTAAAGATTTTCAGGCCGAGGCTGAGCACAGCTGGGTGAGCGTGGTTGGCCGGGGTCCAAGCCTCAAATGGAGTCAGGTGACTCTAAGAGCATGTCTCAGCCCTGACTGGGGGATGCTGGCTGTTTCCTTAG
Seq C2 exon
GACACCTGGTACTGGCAGGGGACGCCGGGAGCCAGAGAAGTGGTCATGAGCGGGGTGCATTGCTCAGGCACAGAGCTGGCCCTGCAGCAGTGTCAGAGGCACGGGCCAGTGCACTGCTCCCACGGCACGGGGCGCTTCTCAGCCGGAGTCTCCTGCACAGACA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000020895:ENSBTAT00000027838:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.054 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0053013=SRCR=PU(49.1=92.9)
A:
NA
C2:
PF0053013=SRCR=PD(49.1=94.5)
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:
GAGGAGGGGGTGGTGGAG
R:
TGTCTGTGCAGGAGACTCCG
Band lengths:
304-1350
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]