BtaINT0086281 @ bosTau6
Intron Retention
Gene
ENSBTAG00000020895 | LOXL4
Description
Bos taurus lysyl oxidase-like 4 (LOXL4), mRNA. [Source:RefSeq mRNA;Acc:NM_174384]
Coordinates
chr26:19205289-19206518:-
Coord C1 exon
chr26:19206403-19206518
Coord A exon
chr26:19205426-19206402
Coord C2 exon
chr26:19205289-19205425
Length
977 bp
Sequences
Splice sites
5' ss Seq
CAGGTATGT
5' ss Score
9.8
3' ss Seq
ACCAGTACCCTCCCTTACAGGAA
3' ss Score
8.45
Exon sequences
Seq C1 exon
GCACTACCACAGCATTGAGGTCTTCACCCACTACGACCTCCTCACTCTCAACGGCTCCAAGGTGGCTGAGGGGCACAAGGCCAGCTTCTGCCTAGAGGACACAAACTGCCCCACAG
Seq A exon
GTATGTGGTCCCCTGTCTGCATATCCTCCCCCGGCCCCCCTGGGGTCAGGACCCCTCTGTCCTGCTCAACAGCCTTAGGCATCTGGAGACTGGGGCTTGGCAATAGTCAGCACTCAAGGCAATTCAAAAAGACAAATTTCCGGGAATTCCCTAGCTGTCCAGTGGTTAGGACTCTGTACTTTCATTCCTGGCTTCAGTCCCTGGTTGGGGAACTAAGATCCTACAAGCTGCGTTGCACAGCCAAAAAACAAATAAAGATGAATTTCTTACCTTCTCTACTTCCTCTGCATTCCCAGCATATTGTATATTATTGTTTAGTCATGAAGTGGTGTCAGACTATTTCCATGGACTGTAGCCCACCAGCCTCCTCTGTCCATAGGATTTCCCAGGCAAGAATACTGGAGTGGGTTGCTGTTTCCTTCTCCAGGGGATCTTCTCCAGCCAGGAATCAAACTCACATCTTCTGTATTGGAAGGCAGATTCTTTACCACCGAGCCGCCTGGGAAGCCCAGTGTACTGTGTACCACTTTTAAAATACTTAACGCTTTTTTTGGATAATAGTTGCTGACCTGTTTCACTTCCGCTGATCCGGATTGTTTGATTCCTATTTGCATATCCATAGTTCGTAGCCCTTAGAAAGGGCATGGTGAAACACCAGGTTGGATGGACAAGTGAATTAGCATAGAGGGATGCAATCTTCCATTCACATTTCCTAGGCCAAAGGAATTTTCACTAGAGCATCCAAATAAATGATCTCTGTCACAGATGGACTTTGGTACAGGGCTGGATTCGTGGTTAGTAGGACTCCTGGCTCTGATAGGCAGGATCTTTAGGAAGCTCAGGTCCCTAGTCTGACTGCAGTCAATTGGCAAGGCTGGTATGAGGATTAAACGTTGAAGGGTGTGAAAGACCTAACAGGTACTTTGTCCCGAGCGCCTATTGAGAGCCTCAGTCACCACCAGTACCCTCCCTTACAG
Seq C2 exon
GAATGCAAAGGCGCTATGCGTGTGCCAACTTTGGGGAACAGGGAGTGACCGTTGGCTGCTGGGATACCTACCGACATGACATTGATTGCCAGTGGGTGGATATCACCGATGTGGGCCCTGGGGATTACATCTTCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000020895:ENSBTAT00000027838:8
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=FE(19.1=100)
A:
NA
C2:
PF0118612=Lysyl_oxidase=FE(22.1=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:
ACCACAGCATTGAGGTCTTCAC
R:
GGAAGATGTAATCCCCAGGGC
Band lengths:
246-1223
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]