RnoINT0086083 @ rn6
Intron Retention
Gene
ENSRNOG00000015727 | Loxl4
Description
lysyl oxidase-like 4 [Source:RGD Symbol;Acc:1308588]
Coordinates
chr1:261845021-261845959:-
Coord C1 exon
chr1:261845740-261845959
Coord A exon
chr1:261845208-261845739
Coord C2 exon
chr1:261845021-261845207
Length
532 bp
Sequences
Splice sites
5' ss Seq
GAGGTCAGC
5' ss Score
5.66
3' ss Seq
GCCGGTTCTCTCCTCTTCAGCAG
3' ss Score
7.23
Exon sequences
Seq C1 exon
ACTCAATGGCCTGACAAAGAAGAACTCCTTCTGGATTCACCGGGTTGACTGTTTGGGGACAGAACCCCACTTGGCCAAGTGCCAGGTACAGGTGGCTCCAGGAAGAGGCAAGCTCCGGCCAGCCTGTCCGGGCGGCATGCACGCTGTGGTCAACTGTGTGGCAGGGCCGCATTTTCAGCGACAGAAGCCAAAGCCTAAGCGCAAGGAGTCTGGCGCAGAG
Seq A exon
GTCAGCCCCAGGGTCCTGACCAATCTGCAGGTGGTGCAGGTCCCTCACAGCATGCCCTGCCCAATGGGGTAGAGGAGAGAGGAGCCATATGGGCAGGAGGAGCTGGGCTCCTTGGGATTGGTTTTTTAAAAGGAGGTCATTTATCATCCTCCCATAGATGGGAAGTTGACATCATCTGCCGTGGATAGACGGCAACCGTGAAAAGAGTAATTAAACTGTAGCTGCAACCCACTGAGGGTGAAGGCATTGAACCCGAACCAGGTCTTTAGTTTAGAAAAGTAGGTGAGAGAGTGCTAGTGTGCCCTGCCCCCACAACACACACGCACACGCACACGCACACGCACACACACACACACACACACACGCGCGCGCGCGCTACTCCCCACATGCCAGTGAAGAAGCGGAGGTCTAAAAAGGGTTAGTTGTGGGAAGCCAAGGGCAGAATTGAAAACTGGGCCTTGCCTCTGGCCCATGAAGCTAACAGGAGCCCCACTCCGAGGTCCACCCCTGAAGCCGGTTCTCTCCTCTTCAG
Seq C2 exon
CAGGAGCTGAAAGTGCGCCTGCGCTCTGGGGCTCAGGTGGGTGAGGGCCGTGTGGAAGTGCTCATGAACCGCCAGTGGGGCACAGTCTGTGACCACAGGTGGAACCTCATCTCAGCCAGCGTTGTGTGTCGCCAGCTTGGCTTTGGCTCTGCCCGGGAGGCCCTTTTTGGGGCCCAGTTGGGCCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000015727:ENSRNOT00000021144:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.189 A=NA C2=0.079
Domain overlap (PFAM):
C1:
PF0053013=SRCR=PD(44.9=71.6)
A:
NA
C2:
PF0053013=SRCR=PU(56.1=87.3)
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:
CCTTCTGGATTCACCGGGTTG
R:
CAGAGCCAAAGCCAAGCTGG
Band lengths:
345-877
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]