RnoINT0086075 @ rn6
Intron Retention
Gene
ENSRNOG00000015727 | Loxl4
Description
lysyl oxidase-like 4 [Source:RGD Symbol;Acc:1308588]
Coordinates
chr1:261839538-261840939:-
Coord C1 exon
chr1:261840696-261840939
Coord A exon
chr1:261839654-261840695
Coord C2 exon
chr1:261839538-261839653
Length
1042 bp
Sequences
Splice sites
5' ss Seq
CAGGTTAGT
5' ss Score
8.02
3' ss Seq
CAGCTGTCCTTCTTCCTCAGGCA
3' ss Score
8.46
Exon sequences
Seq C1 exon
GTGCTCCAGACCTCGTGATGAATGCCCAGCTGGTACAAGAAACGGCCTACTTGGAGGATCGTCCACTCAGCATGCTGTACTGCGCTCATGAGGAAAACTGTCTCTCCAAGTCCGCTGACCACATGGACTGGCCGTACGGACACCGGCGCTTGCTGCGCTTCTCCTCACAGATCTACAACCTTGGCCGGGCTGACTTCCGTCCCAAGGCTGGACGACACAGCTGGATTTGGCACCAGTGCCACAG
Seq A exon
GTTAGTACCTGCTCACCCTTGGCTCTAGAGGGTTAGGGACTAAACGGATTGGTTCTCCCTGGTTTCAGGCTAACTCCTAGTAAGTCTGCCTTTCTAGTCACTTGGCTGGGCTCGCCCCCCAGGAGACAACAAGGGGATCCCTGGAGCACCTACAATGTACATCTTCTTTGGCTCCACCTTTGTGGACAGTGCTTATGGGGCCAGCTGCGCACGGTTACCATGGTTGGTCTCTGCTAGTGTGGGATTACACACTTTGTCTATACTGGACCTTAGGTAGCCCCTGTCAAGTAAAGTGGGGACTGCAGAAATGTGGAGATCCAAAACGGATGCTGGCTCAGCAGAAAAGTTGGCAGGCTCCTGCAGCAACAAGGAGAAGTAGGAAATGGCAGGAAACAGACCGGTACAGAAGGAGACAGTGAGCATCTTTCCTTAGAAGGAACCTGCAGACCAGAAAGGAGAGGCACTGCCTGTGATGCAGGCAGAGTGCAAGGGGAAGTGTCCTGCTTTCTTTCAGGACATGGCTGTGTGCAGGGAAAGCTGAGAGGAATGGGCAACGATTTGAGGACTTGGCCTTGCCTGAGTTAATAAGCACCCTTTCCTGTAGCATGCACAGAGCTGTCATTACTACTTGAGTGGAAAATATGGTAGCAATTTGGTCCCAGGCTGATGGAGCACAATAAACTCTCTCCCTACCTTCTTCACCACTTAGGCCATCTGGGTCAATTTTCTCCCACCCACTTCTCTCAGCCTTGGATCCTGCAGCCAAGGTCCCAGCCTTCTGAAGGCCACCAGGGGCAGTTTGTACCTCTTCTCCCTGAATTAAGATTCCAAGTAGAGGGGACAGTTGTGTCTTGCTGCCTGGCAGGGGTGCCAGCAAAGACGTCTGTGACATGCTCACCTTGGATTTAGGAGGAAGGGCGGGCGCTGCCCGGTTATTACAGCTTTCCCCTGTGGGTAATGATGGGCCTCAAGCTTCCCTGCTAACCTCTCCTGATGACCCACTCCTATTGCTGTAGGGCTGACAGCTGTCCTTCTTCCTCAG
Seq C2 exon
GCACTACCACAGCATCGAGGTCTTCACCCATTATGACCTGCTCACACTCAATGGTTCCAAAGTGGCTGAGGGGCACAAGGCCAGCTTCTGTCTAGAAGATACAAACTGCCCCTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000015727:ENSRNOT00000021144:11
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:
GACCTCGTGATGAATGCCCAG
R:
TGAGGGGCAGTTTGTATCTTCT
Band lengths:
351-1393
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]