DreINT0090065 @ danRer10
Intron Retention
Gene
ENSDARG00000025089 | loxl4
Description
lysyl oxidase-like 4 [Source:ZFIN;Acc:ZDB-GENE-080722-19]
Coordinates
chr13:40073473-40076673:-
Coord C1 exon
chr13:40076519-40076673
Coord A exon
chr13:40073641-40076518
Coord C2 exon
chr13:40073473-40073640
Length
2878 bp
Sequences
Splice sites
5' ss Seq
ACGGTGAGC
5' ss Score
9.44
3' ss Seq
TGCGCGTGTTTGTGTTTCAGGTG
3' ss Score
12.28
Exon sequences
Seq C1 exon
GGACGGGACCGATCCACATGAACTCAGTGCGGTGCGCGGGCACAGAGCGCTCTATTTTAGATTGTTTCTTCCAGGACGTCCAGCCCTGGACCTTCAAACACAACCGGGACGCTTCTGTCAAGTGCTACGTTCCTAAGACGGGTGTGGAGAATACG
Seq A exon
GTGAGCAAAACTAACTCTGGTTACCCTCTGGTATGCTGTAATTCTAATAATGTTGTGAAAAATACACAGTCAAGTTGTAACAAAAACATATTTGTACATTTTAGAACTATTTCAATTAAAATGTATTTGCATTGTACTACAGGGCTGTTGAATGCTTGATTCCACATTACAGTTCAATATCACTACGCTGGATATTTCAGTTATTTCACAGCCTACAACTGTCTCAAAAATCCAAAAAAAAAAAAAAAAAAAAGGATGTCACTTTTTTTTGGGATGACGTGTGAGAAACCAGCCTAACAAACAGAAGCTTTTAGGACAAAGACCTTAAAGATGTCTTGACATGTCTTGTATGTAGTAATGTGTATAAGGGAAGACATGTGGTATGTGTGTAAGTAACGCTGAAGTAGGTCCTGGTTTTGTTCACAGGGGTTCAGGTGATTGTGGAAGAGATTGGTTTTAAGTTGATCAGATTTACATCAAATCTGTTTTTGATGGCATTTACACCTGTCCTTTTCACGATCAGCTTGCTATCTGATCAGAAAATAACAAGGAACAAGCTGTAAACAGCCTCTTATGCTGATGATATATGGCAACTTTTTACTAATGTTATTGGGCAATATTACAGAGCAATGTTGCTCAGCTTTTTTTCTTAGAGAATGGGCAGCAATATTATATCTATATCCTATTGCCCTAATTAGTTGCCCTGCTCATTGACTGCATCATTTCAAGTGATGGGGAATAACGGCGCTATAAATAAACAGAGTTTTTAACGGCGATACTTTTTTCAGTAAGGAATAATTAAATAAATTACTGTTTCACCCGTTACAATGCTGTTACCATTACTGACAAAAAATGCATGTACTGTAATTGAGAACACTGAAGTGGTTTTCATATGAGCAGCATCCCTCTCAGTCATAGGACCTCTCTTTCTCTGGGGTGTGTGCGTGTGTGTCTTTGGGGCTTTGGTGGGACACAAAACCAACCAGTGATGATGATTGGTGTGTTTGTGAACATGATGACTTAGAGTTCTTTCCATTGTTCACACAAGCTCACGCACAGTCAGTCACACACACCAACAACCAGGAGTCAGAAAGATTGCAAATCCAACAAGTTCAATGGTAGCGTTTTCAAACTGGAAATAAAAACACTACTTTTCCCTTGTTGAGTTGAAAGGCAAGAACGTTCATGTATGCAACCTATGACAAGGAAAAAGGAGTCTCTATGCGTCGATGACAAGTAATTCTCACCTCACCTCATCACATGCCGCCATACAATTAATGGCTACGCAGGTGACAATGGGAGCTCTGCTACCAAAGGCGAAGATGAAGCCACGACGTCAAAGCAAATAAAACTTCATTTTTCTCCACCGCAAACACTTATTACTCAGACAGAATTAAACAATATATTATCTAGATATATAGTTTTCTTTGTCTCTTACATTGTCTCACAACAACATTAAAGTAGTGTAGATTAGTGAACAATGTTTTATATGTATGTCTCTACTTATAGTCTTTTGACAAATTAGATTATTTTAAAGTAACACAATCAGGGCCGGACTAACATAGGCCTCATGGTCTACAGAATAAGGGGGCCCTTGATTGGCTGAAGTATTAATTTGCGTTATGATGTGGAAAATGACTCTTTGCGTTATGCTTTCTCTCGTCGATAATGTGAAGTATTCCTTTCGGTTCGCTGCTGTTCAAAAACAGTGGCGCTGGTGCTAAACTGGGGCTCAAGAGTGGCTGTAGCCCAATCAGGACAGTCCCTTATTTTGGCGAGGCAGTGGCGCAGTAGGTAGTGCTGTCGCTCCACAGCAAGAAGGTCGCTGGGTCGCTGGTTCGAACCTCAGCTCAGTTGGCGTTTCTTTGTGGAGTTTGCATGTTCTCCCTGCCTTCGCGTGGGTTTCCTCTAGGTGCTCCGGTTTTCCCCACAGTCCAAAGACATGCGGTACAGGTGAATTGGGTAGGCTAAATTGTCGGTAGTGTATGAGTGTGTGTGCAAATGTGTGTGTGTGGATGTTTCCCAGAGATGGGTTGTGCCTGGAAGGGCATCCGCTGCGTAAAAACTTGCTGGATAAGTTGGTGGTTCATTCCGCTGTGGCGATCCCGGATTAATAAAGGGACTAAGCAGACAAGAAAATGAATGAATGAATGAATGAGTCCCTTATTTCGGGACTACTGTGAGAGCCATCCATTCAAAGGTAGGCTAACCAAACTCATAGTAGAGCAATAAATAAAATTCAAATAATGCACATGTAATAACAGAAGCTGGGCTAGGCGGAATCATACTGAATGGACTCATAACTGATGCACTATATATATATATATATATATATATATATATATATATATATATATATATACATACATCAAATCTAAAGGCCAACCTGTTATTTTTTTACCTCACAAAAGTGTGTGTGTGTGTGTGTGTGTGTGTATATATATATATATATATATATATATATATATATATATATATATATATATATATACACACACACACACACACACACACACACACACACACACACACACACACACACACACACACACTTTTGTGAGGTAAAAAAATAACAGGTTGGCCTTTAGATTTGATGTAGCCCCAGAGCCTAATATGTTCTTAATTCAGCCCTGAACACAGTAGTTACTCTCCCTGGTATTTAGTTACTTTCATAATATTGTAACTTAGTTATTTTTTGACAAAGACTAGTAACTATAACAAATTACTCTTTTTAACAGAACGTGCCCAAGACTGATAATTTCACAAAATTGCCCTGAAACGTTGCTCAAAATATTGCCCTGCATATCATCAGCATTTCATGTGTTTCAATGTTTTCATGGTCTGCGTCTCAAATGATCTGCGCGTGTTTGTGTTTCAG
Seq C2 exon
GTGCGTCTGGCGGGCGGCCGGGACCCAGCAGAGGGTCGCGTGGAAGTGCTCATGGAGGACGGCGGTCGAAAACATTGGGGGACGATCTGCAGTGAGAACTGGGGAATAAATGAAGCCATGGTGGTGTGCAGACAGCTGGGCTTTGGTTTCGCTGCTCGCGCCCATCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000025089:ENSDART00000044963:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.019 A=NA C2=0.161
Domain overlap (PFAM):
C1:
PF0053013=SRCR=PD(42.9=80.8)
A:
NA
C2:
PF0053013=SRCR=PU(49.1=92.9)
Main Inclusion Isoform:
NA
Other Inclusion 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]