DreINT0090039 @ danRer10
Intron Retention
Gene
ENSDARG00000076306 | loxl3a
Description
lysyl oxidase-like 3a [Source:ZFIN;Acc:ZDB-GENE-070818-2]
Coordinates
chr14:5560060-5562803:-
Coord C1 exon
chr14:5562692-5562803
Coord A exon
chr14:5560134-5562691
Coord C2 exon
chr14:5560060-5560133
Length
2558 bp
Sequences
Splice sites
5' ss Seq
TCGGTGAGA
5' ss Score
8.51
3' ss Seq
GTTATTTACGTTTTGTTTAGGTG
3' ss Score
7.64
Exon sequences
Seq C1 exon
GTCATAATAAATCCCAACTTTGAGGTCGCTGAGAGCGACTTCACCAACAACGCCATGCGGTGCAACTGCAAATACGACGGCCATCGTGTCTGGTTGCATAAATGTCATCTCG
Seq A exon
GTGAGACGGGGTGTTCTCTGGGTCCTTTTAGACCTGTCTGTTTCTATTAATCATGACATGCTTGCTTGTTCAGATATTTTAGATGAGGACAGCATTAAATTAACGGGGCATTTATTCGACAGTTTTTAGTGCATTTGGGCTGTTCATTTACACAAAAGTAATGCTAATACAAGTTTTCAATGGAAATGGCCGATTTAAAATTAGCATATAGTGTCAGACACCATGCCTTTTAGTGACAAAATAATATATCAAAATCTTATGCTTTTAGAGATATATAGAAAATAAAATGCTATATAGTAAAATAGCCACTTGGAAAATTATGCCTCTGGTATTTATTACGAGTTTTGCTCATTTCTTTTTAATTTAAAAGAGCTGTAACTTTTTATTATTATTATTATTTGTAATTTCACACCAAGATTTGGCTCAAAAATGTAATAACAGCAGATTTTTTTTAAACAAGAAGTTCATTAAAGACAGATAAATGTTTAACTACATTTTACACTTTTGTCATGTGTGACTGAAAAAGCAATGTTATACCAACAACCCACATGGGCTGCACAATATATCGTTTCAGCATCAATATTGCACCGCTGCTTGTAAATGCAAATTTTTAATCACTCACAATCAAATCAATGCATGTAGACATGGTCAAGACGATCTGCTGCAGTTCAAACTGAGCATCAGAATGGGAGAGGTGATTTAAGTGACTTTGAACGAGGCATGTTTGTGGGTGTCAGACAGGCTGGTCGATTTCAGAAACTGCTGATCTACTGGGATTTTCATGCACAACCATCTCCAGGGGTTTACAGAGAATGGTCTGAAAAAGAGTAAATATTCAGCGAGCGGCAGTTCTGTTGGTGCAACTGCCTTGATAATGTCAGAGGAGATCGGCCAGACTGGTTCTAGCTGGTTTAGTAGCTCAAATAAGCACTCGTTACATCCAAGGTATGCAGAAGACCATCTCTGAATGCACAATGTGAAACCTTGAGGCAGATGTGCTACAGCAGCAGAAGACCACACCAGGTGCCACTCATGTCAGCTAAGGACAGGAAACAGGCTACAATTTGCACAGGCTCACTAAAATTGGACAATAGAAGACTGGAAAAACGTTGCCTGGTCTGATGAGTCTCGATGTCTGCTGCGACACTCATATGACAGGGTCAGAAATTGGCATCAACAACATGAAAGCATGGGATAGCGCATCATGTCGGAGTGTGAATTATCTCAGACTGGTTTCTTGAACATGAAAATGAGTTCACTGTACTCAAATGGCCTCCACAGTCACCAGATCACAAACCAATAGAGCACCTCTGGGATGTGGTGAAACGGAAGATTTGCATCATGGATGTGCAGCCGTCAAATGTGCAGCAACTGAGTGTTGCTCTCATGTCAATATGAACCAAAATCTCTGAGGAATATTTCCAGTACCTTGTTGAATCTATGCCATGAAGGATTAAGGCAGTTCTGAAGGCAAAAGGTGGTCCAACCCGGTACTAGTAAGGTGTACTTAATAAAGCGGCCAGTGAGTGTATATTGCGATCATGATTTTTAAAAGTATTATAGTGTTTTGCAAACCTTTATTACCATTTGTTGAGCTTTCCAGTACAGTTTCATAGAGCGCTTGGACCAGAAAGCTGCTTCGTGTGACATCAGTCTTAACAAGTGGATTAATAGTCAATAAGGTAGCAGTAGTTTCAGTATCAGTAGGGTAGGTTAATGATGTAGAATAAGATCATACTTTATAAGTGCTAATAAACTGCCAATATCTTAGTAATAGGCAGGTAATAAGTAGCTTATAATAGTGGCAATTTGTAAGTTTCCACGTGACATTGGCAACTACATACAGTTGAAGTCAGAACTGTTAGCCCCCCTGAATTATAAGCCCTCGTTTATTTGTTTATTTCTGTTTAACGGAGAGATTTATTCATCACATTTCTAAACATAAGTGTTAATAACTCATTTCTAATAACTGATTAGAAATTAAAAATATTTTTTTTGCCATGACGACAGTAAATAGTATTTTACTAGATATTAGTAAAATACTAGACACTTCTATACAGCTTAAAGTGACATTTAAAAGCTTAACTAGGTTAATTAGGTTAACTAGGCAGGTTAGGGTAATTAGGCAAGTTATTGTATAACGATGGTTTGTTCTGTATTGAAAATTCGACTATCGAAAAAAATATATAGCTTAAAGGGGCTAATGATTTTGTACTTAAAATGATTTTTAAAAAATTTAAAATGGCTTTTATTCTAGCTGAAATAAACCAAATCAGGCTTTCTCCAGAAGAAAAAAATATTATCTGACATACTGTGAAAATTTCCTGAATCTGTTAAACATCATTTGGGAAATATTTAAAAAGTAAAATAAAATTCAAAGGGGGGCTAATAATTCTGACTTCAACTGTACATGTAGAATGCAGTCATTTTTGTGGAACCATATATGGAGAGAAAAAAAAAAAACATGTCTGATTTACTACATTATCATTATGTACACAAACCCTTCAGTTTTTGTCATCAATTTACCATTTAACTCGTGTTATTTACGTTTTGTTTAG
Seq C2 exon
GTGATTCTTTCAGTGAGGAGGCCGAGAAAGAGTTTGAACATTATCCCGGGCAGCTCAACAACAAGATCTCATAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000076306:ENSDART00000054866:13
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0118612=Lysyl_oxidase=FE(18.1=100)
A:
NA
C2:
PF0118612=Lysyl_oxidase=PD(1.0=8.0)
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]