BtaINT0086274 @ bosTau6
Intron Retention
Gene
ENSBTAG00000020895 | LOXL4
Description
Bos taurus lysyl oxidase-like 4 (LOXL4), mRNA. [Source:RefSeq mRNA;Acc:NM_174384]
Coordinates
chr26:19201799-19204930:-
Coord C1 exon
chr26:19204819-19204930
Coord A exon
chr26:19202435-19204818
Coord C2 exon
chr26:19201799-19202434
Length
2384 bp
Sequences
Splice sites
5' ss Seq
CAGGTACCT
5' ss Score
8.16
3' ss Seq
TGTCGTCCTTCGGTCCACAGGGG
3' ss Score
11.25
Exon sequences
Seq C1 exon
GTGGTCGTGAACCCCAAGTTCGAGGTGGCAGAGTCAGATTTCTCAAACAACATGATGCGGTGCCGCTGCAAGTACGACGGGCAACGGGTCTGGCTGCACAACTGCCACACAG
Seq A exon
GTACCTGCGGGCCACTATGCGGCCATCCCCACAAGAGCCTGGGGTGCTGGAACACCCTCAGCATCCCTGCGTGCAAGCAGAGTGTGTGTGTATGCGGCCATCCCCACGCGAGCCTGGGGTGCTGGAAGACCCTCCGCATCCCTGCATACAAGCAGAGTGTGCATGTACAGGCTGGGGATGGAACAGAGATGAATGTCCTTTGATAGTTTCATAGAAGGTAGATTTCCAGAACAGACTTCACCCACCTCACCCACTAACTACTTCCACGACCCTCTTTATCCTAAAGGTTGTTCAGATTGAAAATGCAGTCTCCCGTCTGTTCTGGAATCTCGTTACTTCAAGCCGAGTCAGGATTTCCCTTTTCCAGTCTGTTACTATTCCCTTTCCTTTCATAGGATCTTAGTTGTCTCCATCCCAGGCTGGCTGCCTCACAGGCAAATGTAAAAGTCCCCTAGATCTGTGCTGCTACCTCCAGCTGTGATCCCTGCTTACATGGACAATAGGGCTCTGGACGCTTGCAGAACTGGTAGTTTCAGACAAAGATGCAATGATCCAGTGGGGGCAGATACACCCCAGAGCAAGGAGGTGGTTGCCCCGCTTGCCCATAAAGAAAGGTAGCAGTTCCTCTGTCTTCAACCTTTAAATGCTTGCATTTGCTGTGGGGCTGTGCATTCACACCCACATTTTGCACACAGGGGGAGGAGCAGACTCATTCATTTAGTTGACAAACGTGGGTTAAGACCTATCTCTGTGTCGAACACTGTGCCAGGCTCTGGGAAATTAAATAGGAGTAAAATGCAGAGCTGAGTGTCAAGTAGGGTAAGCAAACATGCAGATGGATACCCCAGTCCTACTGAGCACCCCAAACCACTGTGAACTGAGGCTGAGCAAGCAGAGAGCTTTCTGAGTAGCAGCCTGGGGGCCAGTCAGGATTCCCCAGTGCTAAGTTGTTTCAGTCGTGTCTGACTCTTTACAAGCCTATGGACAATAACCTGCCAGGCTCCTCTGTCCATAGGATTCTCCAGGGAAGAATACTGGAATGAGTTGTCATTTCCTCCTCCAGGGGATCTTCCCAACCCAGGGATCGAACCCACATCTCTTACGTCTCCTGCATTGGCAGGCGGGTTCTTGACCGCTAGCTCCACCTGGGAAGCCCAAGGTTCCCCAGAGGAAGGGACATTTGTGCTGATATCAGAGAGGAGACTGAAGTCAGAGGGGAGGAGCAGGAGAAAGAGCATAGCATTTGGCCTCAGGTTTCACTGGGCACCAAATCCAGTTCCACCACATTCCAGCTTTAAGACGGTGAAGAAATTTCCACTCAGAAGTCCTCTCTATTGTAAAATAGGGCTGTGTACCCAAGCCCACTAGTGTTCTTTGCAGGGAGGGTTATGATGGTTCCTGCTAAGAGAATGGACTTTATCCTGTGGACTTCTGGAAACCAATAACAAATTTCAGTCAAGGATGCAAGAAAATCAGATTTATGTTTTCAAAAGATAACTCTGACAGTGGATGAAGACAGTGAGGAGTAAGGATTTGAAAACTGTGGCTGGAATAGATTCTGCTGCCATTAAGCAAGACAGGAACAGGAGAGGAATTAGGAGTTGGAGCCCAGAGACCTAAGGCTGCCGGCGTGGAGGCAGAGGCTCCGTAACACTGGTGGCAGGCTGCACAGGGTCCAGGGGAGCGAGGAAGGAAGGAAACAACGTAGCTCCGACCCCCCAGGGTCCTTGCTGGGAAACAGAGGACGCACTCAGGTGCAAGTGTGAGGTTACTTAATGAGAGGACTATCCCAAGGTGTGAGCAGGACTAGGGAGAGGAGGATGTTGAGATATCCAGGGATAAGGAAGACGGAAATGTTGCTATCACTTTGGGCTTAAGTGGGCAAAGGCTGCCCTGGAGCCAGGTGAACCCTTGTGCTGAGGAGGGAGGAGCTGGTGGGGCTGGAGTCGCAGGAGACCATTGCTGCAGGACAGGGGAGGAAATGGCCCAACCTCTCCCTCCTTCCATCCTCTAGTCTCTTGTTGCTTCCCACTGAGCTAAACTAACCAGAAGCCAGAAGAGGAGGGAGCCAGGGTGAGGCAGTCTCCAGGGCTCTGGTCTCCAGGGCTCCTAGAGAACAAAGGAGGATAGAGAATGAATGTGGGGAGGGAGCAAGGAGAGTGACCAGCACAACCTTTCCCACTCGATAGCCTCTTCTTTCCCATGTTCCTGCAGCTAGGCACCTGTCGGCATCTATTTCTCTAAAACGGGTCGTTGTCCGTGCCCATGACTAACCCAATGGAAAGGCCAAGCCAGACAGGATGTATTGGTGTTTGTGAAGTTGTCAGTGAGGGGATGGGACTCTGGTGAGGTCAGCTACTTACCTGTCGTCCTTCGGTCCACAG
Seq C2 exon
GGGACTCATACCGAGCTAACACAGAGCTGTCCCAAGAGCAGGAGCAGCGTCTCAGGAACAACCTCATCTGAAGCCGTCACCACACGCTCCCAGTTGCTGCCCACACACCAGATACCTCAGCTTACTGGAGCCATGCCCTTCACCGAGCCCTGACACAGAGGGAAAGGGGCCAGCGCCAGGAAGCACCGGGAACCCGCTCAGGAAGCCTTTAGATAGCAAGATCACCAAACCAGAATGGCGCCGCTCCCTCAGGATGGCTCTGGGTCTGATCCCTGGGGGCCTCTGGTCTCTAGACTATGGCCTCCAGGCTTTGTTCAGCTGAGCTCCTCTCCTCTAAGGAGACCTGGTCTTCCCGGGATCTTGCCCCTGAGCTCCTGGTTCAGGAGGTACCAGTTCCTTAGGAATGGACTATGGCCTGGCTCCCCATCTAAATGGTGCTTTGCAGATGTCTCAGAGAGGGCCAAAATACAGGAGGAGGAGTCAGCTCTCTGCTAGGAGCTCTGAGTGACACAGCTTGTGTCAAAGTCACACCTGGCAGAGAATCTGGTGAACTGAGTGCCTTGCTTGATCTGTCCACACTTAGAACTCAGCTGCTCTTCAAGTCTGTTCTTCAGTGTCTTACCTTTATCCTCCTGC
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000020895:ENSBTAT00000027838:10
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.130
Domain overlap (PFAM):
C1:
PF0118612=Lysyl_oxidase=FE(18.1=100)
A:
NA
C2:
PF0118612=Lysyl_oxidase=PD(1.0=8.3)
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:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]