DreINT0090045 @ danRer10
Intron Retention
Gene
ENSDARG00000076306 | loxl3a
Description
lysyl oxidase-like 3a [Source:ZFIN;Acc:ZDB-GENE-070818-2]
Coordinates
chr14:5578282-5582087:-
Coord C1 exon
chr14:5581933-5582087
Coord A exon
chr14:5578453-5581932
Coord C2 exon
chr14:5578282-5578452
Length
3480 bp
Sequences
Splice sites
5' ss Seq
CTGGTCAGA
5' ss Score
3.96
3' ss Seq
TGCTGTTTAACCCATGGCAGATG
3' ss Score
6.39
Exon sequences
Seq C1 exon
GTATGGGTCCCATCTACATGAATGAGGTCCAGTGTGGTGGGGATGAGAAGAGTCTGTGGGACTGTCCTCATCAGAGTATCACTGCTGAAGACTGCAAACACACGGAGGACGCCTCTGTAATCTGCAACATTCCCTACATGGGCTTCGAGAAACTG
Seq A exon
GTCAGACACACACGTTTTCATTTCAAGCAAGTTAGCTAAGATTTGTTTAGATAAAAAGTAGGGCTGCACAATATTGGAAAAAAATATGACAATAAGAAATACCGTGAAAAAAAATCCCTTGCTCTATTGAACATCATTTGGGAAATATTTGAAAAAGAAAAACAAATTTACAGGAGGGCAAATAATTCTGACATCAACTGTATATTGCAATATGAACACAATTTCACTAAATAGCTTGAACAGCTCTATTTAGAAAGAGTTCATTGATTTAGACTGATTTGGGCCTTTTCTGTTGATTCACTCATAAAATAGAACATATTAAAAATAAAAGGGAAATATACAGTGTTTCCTGGAGAGTCTAACAGTATTCAGGTAATGAAATTGAAAACTTCAATGTAAAACAACGCTATAGACCTTTTTCATGGCTGCTGCATGGAAGGCACCATAGCGACCTGCGTCTTCCGGTAGAATGCTAAAAACTTCCGTTTACAGCGTGTACAACTGGTAATTTGCGCTCCGTAAATGGGTTTCAATGACGTTTTTAATGGATAACAGAGTGTTTTTGTGACACACATCTTAGAAATGTGTCTGTTAAAGCCGTTATAATCTGTCACATGTGGTTCAAGCGCGTCAGAAATACGAGAAAAACGTTCTCCTAGTTCACGTGTCTGCCGTCAGAAATACAGTGTGTGTGTGCGTTCCCGGCCTGTCAGCTGTTAGCTCAGCGGCTCTTTAACACACAGAGAGAGAGAGAGAGAGAGAGAGAGCAAACCAGAGTACTGGCATGAAACTTAACAGGTATGAAAGTCGAGCAATTTACAAAAATGACCAATAAAAGTCTGTTATTGATCCTCTGCTGGCTGATTTGCTGTTCATTCTAATCAAGTGCTGTTTGTGTTTTATTTCGTGTGTTGTATTCACCACGGTTTGTGTTTTTCTGTCATCTCGAAATGACACTAGCCTATATTTTCACTTTGTCACAGTTATTAAATCAGTGTATCAGTGGCACAGTACAGGCTACGTGTGTGTGTCAAACATTTTGGTGAATTACATTTGTTTGGGCTGGTTATATATTTGAAATAAATAGAAAATGTTGACTTTAGCGATGACAAGGCTTCATTTAAACTGCAGAAGATGCCGTCTGACAATGAGGGGAAAATGCCTCACAGCAGCTGTTTTTCATCCTATTAGATCGCATTTCTTTAAATGATCAGTCCAGGGGGTGGCGCTGATGGACAACAGTATTAGTTCAAAGAGGATAAAAGCAGGTAAAATAGATTAAAACTATCGTTTCAAAGCTGTCCAAATGTGACTGTTTACACGCATCAGCTGCCGACTGGAAGTTCTTCGCATTCTCCTTGCGCATACACGCAAAGCATAATGGGTAATTTTGCGTTCCAAGAAAAAGGTCTATATTATCCATTGTATAAATTATTCAATACATCACAACTTAGTGAAGTTTCACAAACTAATTTCGAGAGGAGCACGTGATATGATTGAGCACGACTGGCTTCTCATCTGTAATCATTAATAATCCAATCAGAGTGATCCAAGGTTACCATAAATGGATCAGTTTCTCCCTACTGCTCTATCTTCGTAATGGAACAATCCCCCCTTCCACCCTATCTCCTCCTTTTCCTCCCTTTTCTAAGGGTGAGCTCTCAAGACATACCTGATCTCGGGTCCCTTTATATGCTTGTTTATTATATGACAAACCTGTTATAAACGCCAAGCATATCTAAGTGGGAACTCTTGAAATTAAAGTTATAAATAGTGTAATTGTTTGTGCCTGAATACTTTAAATTCTCTGGTGCCTCAATGCATACACAGTCACGAGCCCTAAAATCACATGCAAATGATAAACTTTCACTGGATTATAGTTAAAGGTGCTGTATGTAAGGTTTTGACTCTTCTAAAGCATAAAAATACCTTAATTTGTTTGCAGATATTAAGAAACATGCTAAGTGAACATTCTTGTTTATCTGATGAAGTCAGATATTCTGCTTTGAAAATGTGCGTTACGTGCCAGAAAGCCTGTCTTTGTTTTGGTCCCGCCCGATGGCAGTTTAACCAATTATATTTCAGCACCCTGGGTTGCCTTGATGGAAAACAGCGTATTTCATTCGTTCAGTCAGGAAGGCCCTCAAAAGTATGAATCTGCAACCGAAAATGCGACCTCCGGTGGACAGTAGCAGCCTCCAAAATTAGACAAATTCCGCATGAGGTGATTATCAATTAACAAATAACATAAACATTACAAATGTAAACATTAGGTGAGCAGGTTACATTGTAATCCAGTGTCCTAACAACACGCTACGTGATGGGATTTGCAGTGATAAGCACTTGGGCTGTTTGCACCAGAAGACACCCGACAGAAATTTAAATACAGCCATTAAGAAGCACAGAACAGTGCACTCACTGCACTCCAACAAAATGGTAAGGTTTATAATCTAATTAATACACATTAAACCTCTTTAACATTAATAAATGTACGTGCTGAATCACTGATATGTGTTGGTTTGCACTGACTCACAGTTCTAAAGTTCAATTTTAAAGGGTTTATTTTATTTACAAGATCTGAGGTGAACTATCTGCTGCTGCTTTTAGAAGTATGGCAATATGTACGTATGTAAAATGACATTCAAACTCACATTATTAGCATTCAACACTGAATAAAGCACATAAGTTTTATTCATATCATATTCAGTTTTCTGTTATTCATCTGCAAGAAATTGAAGCCGTTCCTAAAAAATACGTTTATAACGTGTTGGTTAGAACAAAAACTCCTTTAAATAAGGAAAGTATTTCTTCCACCGTGTGGCGTTGCTTTTATTTAAAACATGATTTAAACCAGCCTTTGTTGGTGTCGTCAATCTGGCAACCTGCTCTTACACGTGTTTTGAATTGGGAGTGCAATACCTAGTTCAACCACTGGGTGTCAAACTTACATACTGCACCTTTAAACTCTGCAGTGAGTTACATTCTTAGTCTACTACATTCCCAACATCTCCACACTGCACTGCACATTGATGTAACTATTGAGGATGCGCGCATTGCGATATCGATGCTGAAACTATATATTGTGCAGCCCTAATAAAACCATGTCAAATCTGCTTAATTCTAACCATTTTACGCTTAATAAATGAGAATACGTTGCCTCAGACATATCAGACTTCAGAGTCAGTGCATAACAAACCTCTGCCTTCATCAAAGTGTCTTCCTTTATTAATTCGGATGCAAAAATATGCAGTTTTGTGCGTAAACATTTTCCTTAGACCATCTACGAAAACTAACTAAGGCTAAACCAAATCATTGCACCACCAAAATGTGCAAAACCATTTAAAATGAGCATGCTTTTATTCAAATAGGTGATGCAATGCATTGTAAAGTCAGCCCTAGAGTAGCAATGCTAATCCTATTAAATGATCAAAGTCATCGTTCTTACTTCTTTCTTCTGCTTTGCTGTTTAACCCATGGCAG
Seq C2 exon
ATGCGGCTGACTGGGGGTCGGACGCGGTTGGAGGGGAGGGTGGAGCTGCTGCTTCCTGCAGGCGGTGGGGTGAGGGACTGGGGTTTGATCTGTGGGGACGGATGGACGTCTCGGGAGGCCATGGTAGTGTGCAGACAGCTGGGGTTGGGACATGCCAGCAGTGGCCTGAGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000076306:ENSDART00000054866:7
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:
PF0053013=SRCR=PD(42.9=80.8)
A:
NA
C2:
PF0053013=SRCR=PU(50.0=93.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
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]