DreINT0090046 @ danRer10
Intron Retention
Gene
ENSDARG00000076306 | loxl3a
Description
lysyl oxidase-like 3a [Source:ZFIN;Acc:ZDB-GENE-070818-2]
Coordinates
chr14:5574680-5578452:-
Coord C1 exon
chr14:5578282-5578452
Coord A exon
chr14:5574840-5578281
Coord C2 exon
chr14:5574680-5574839
Length
3442 bp
Sequences
Splice sites
5' ss Seq
AGAGTAAGA
5' ss Score
5.73
3' ss Seq
AAGTTCGCCATTGTGTTAAGGAA
3' ss Score
1.83
Exon sequences
Seq C1 exon
ATGCGGCTGACTGGGGGTCGGACGCGGTTGGAGGGGAGGGTGGAGCTGCTGCTTCCTGCAGGCGGTGGGGTGAGGGACTGGGGTTTGATCTGTGGGGACGGATGGACGTCTCGGGAGGCCATGGTAGTGTGCAGACAGCTGGGGTTGGGACATGCCAGCAGTGGCCTGAGA
Seq A exon
GTAAGATAACAGGACATGCACACATGGGGCAGATGAGGGGTTTATAGAATGAACGTTAGAGGGGTTGCAAAGAAATGGCACCATATAAAATGTTATATTTGCAAAAATCCAGAGCAATTAGTAGATTGAAATTTGTTGAGTGATCTTACAAAAAATTGTGATACAGTGGGGCGTCATATGAAACGTGTCTTGTTTTTTTCTGGGTATAATATTTCTAAAGGAGCTGTTGACATGGGATTCTTATGGATTTCGAGGGTTTTGCATCTGAACTCTTCATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATAGATGGATGGATGGATGGATGGATGGATGGATAGATAAATGGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATATATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGGTAGATGGATGGATGGATGGATGGATGGATGGATGGATATTATGGATGGCTGGATGGAAGAATGGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGGTGGATGGATGGATGGATGGATGGATGGATGGATGGATGGATGGATGGATGGATGGATGGATGGATATTATGGATGGCTGGATGGAAGAATGGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGAAAGAAAGAAAATGCGAAGAAATTCAGCTTTTTATGCAGTTCCAATAAGTGGTGACGGCATGTTTTGGAACAGTTTTTAACCTGCAGAGCATTAACGAGACCCAGACAGAATATGCACATTTTCCACATTTTCTATGTTGATTATGTCTGGAATATCTGGAAAAATCTTTACGATTAATGAGTGTTCTGCTGAGCTTCCTGTGGGTGCAATGTCTGTCCAGGCTTTGAATTCAAACTATAAGATTGCTGAATTATTTTAGCATTTGAATGTAATGTTTTCTCCTAAAATGGTAATCTGAATTGGTGTATAGTTAGTGTTTGGACAACTTTTGTCAGTCTTCTGGCATTATATATACACAAACACACGCACACACACACACACACACACACACACATATATATACACACACACATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATACATACATACATACATACATACATACATACATACATACATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATACACACATATATATGTATAAATACTCATCAGATTGAACAGGTACCCAGAGATACTGCAAAAATACTCAGGAAAACTTTTTTTTTTACTTCAGTGTTTTTATTAACCAGTTGGTAAATTATTTTTTATGAACGTCTCAGTATCATAAATCATTTTGCTCAGTGGAGTTATTGTACAATGAAATTCAATTACTTTTAAGGAATTTTCTCATTCATCTAGTTTTTTTTTAAATCACTTTAACATTGCAAATTGTGCTTGAAAAGTAGATTGTTAACCACACAAAAATCAAATACTTCCATACTACATAGTACGCTAAAATATAGCTGAATAGTACGTCCGAATTCATAGAATTTGAAAAAAAGTATGCAAGAAGTGGTTGACCTACTACTTCTGACGAGATTCTGAAGTGCGCATCCAATTCACTGTACGCTATCCCATGATGCACCGCGAACTGACGCGGGTAGGTCACGTGATCACGACAAAATGGCAAATGTCATACATCAGAGTTCCATTCATACTACTCACATTCATAACGGTCAAGTAGTAAATTTAAATTCAAATGCACTACCTTCTGAGTAGTAGGCGATTTCGGATGCAAGCTATGTGATCAGACTTGTTGTGAAGTATTTCCTAGTACTTTCTATACTGGGACAAAATGCTACTCATTCATAAATACATCTGATTTCCTAAATTAGTTAGCATTTTGAACAAATCGAATTAAAACACACTTATTAAAACATTGCATTGACTTATTGGTAGTTTTAGCTTTTAGTAAGTAGTGTATAATTTCAGTTTAATCCATTTAATAGTTGTCCATTAGAAAAACATTCATCCATTAACATCATTTATTTGCCTTAAGCTTTTACAATAACCGCTAATTTGTGAATGGGACAGTTTGCTAACAGCTTTAAGCCCTGGAATACAGGTAAAACCGCATACTTTTACCTCGTGAACTCACAACAAGCTACTAAAATCATATGTAATCAAAGCATTAGCATAGATGGCTAATGGTTAGCAGTGTATTTAGCTAAGTTTGCATGCTAAGCCCTTGCAGTGGGGATCTGTCTGCAGATCCGTATGGTAGGGGGAAGGACGGATCACGAGGGTCGCTTGGAGGTTCAGATCAGTTCCAGATGGGGAACTATATGCAGCGACAATTGGACCACAAGAGAAGCCATGGTGGCATGCAGACAGTTAGGCCTCAAATACTGCCTGCATGCTATTACTGTGAGTAAGAAAGGCGCTATAGGATTGGATAATCAAGTATTGCTTCTTAATTGGTCTTTAAATCCTATGTTATAATAATATGTTATTTCAAATTATTTTTAAATTATATTTAAAATATTTTGCATTATTAACTTTTTGTACTGTATTTAGATCAAATAAATATAGTCGAACAAAAGATTTAGTTTTTTAAAAACTTTTGAAGTGAGTCTACATCTGAAAGGGGCTTTCCATTTATTCTAAGTTGTGAAATGTAAACGTTGTTTACAACACCTACTCTCAACCAATGGAGTGACTGAATTTGAGTTCGACCAAAATAAGCGTTTACCATTACGTTTGGTATTTTATTATCAAATGTCAACCTTTATATTCTTGTGTTTCTTTCTTTCTTTCTTTATGTTCAGTAAATTAATTCATCTACTAACAAGTTCGCCATTGTGTTAAG
Seq C2 exon
GAAACATGGTACTGGGACAGCAGTAATGTGACGGAGATGGTGATGAGTGGAGTCAAGTGTAAGGGAGATGAGATGACCTTAACCGACTGTCAGCATCATTCTGTCGTCAGCTGCAAAAGAGCTGGAGCGCAGTTTTCCGCTGGCGTCATTTGCTCGGACA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000076306:ENSDART00000054866:8
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:
PF0053013=SRCR=PU(50.0=93.0)
A:
NA
C2:
PF0053013=SRCR=PD(48.1=94.4)
Main Inclusion Isoform:
NA
Other Skipping 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]