DreINT0090014 @ danRer10
Intron Retention
Gene
ENSDARG00000044010 | loxl2a
Description
lysyl oxidase-like 2a [Source:ZFIN;Acc:ZDB-GENE-070818-1]
Coordinates
chr10:20450507-20452121:-
Coord C1 exon
chr10:20452010-20452121
Coord A exon
chr10:20450575-20452009
Coord C2 exon
chr10:20450507-20450574
Length
1435 bp
Sequences
Splice sites
5' ss Seq
TAGGTGAGT
5' ss Score
8.83
3' ss Seq
CCATCTCTACCCCTGTCCAGGTG
3' ss Score
8.29
Exon sequences
Seq C1 exon
GTGGTAATCAATCCAAACTATGACGTCGCTGAATCAGATTACACCAACAACGTCATGAAGTGCAAGTGCCGCTATGATGGATACAGGATATGGACATACAGCTGTCATATAG
Seq A exon
GTGAGTTGGTTAGAAAAATAAACCCTGATTCTGTAAAGCTCTTTTCTGCGATTCTTTTCAGACTTCTGTTTCATTTTTTGTTATATAGGGAAATAACTAGGAATAACACATGGCAATAAAGTCCACAATTACCCTGTCTATAAACAGTGTTCATTCCAAAATTCTCAAAATATAATTAATATTATAAAACAAAATTACCAATTTGCAACATCAAGCAGCCAGTTTTATTTTATAGTTTTTGTATAGTTTAAAATTGTTATATCCTGGATCTTACATGCTGCAAAATGGTGTTGGATAGTGACTTTTATTTTGAAGGTTTTAAAAGTGCCTAAGTCTGTCGCCAATACAATTTTTATACAAATACAATATACAGTTGGAGTCAGAATTATTAGCCCTCTTTTCATTTTTTCTTTTTTTAAATATTTCCCAAATGATGTTTAACAGAGCAAGGAAATTTTCACAGTATGTCTGATCATATTTTGTCTTCTGGAGAAAGTCTTATTTGTTTTATTTTGGCTAGAATAAAAGCAGTTTTAATTTTTTAAAAACCATTTTAAGGTCAAGATTATTAGCCGCTTCAAGGTATTCTTTTCAATATTCTAAAGAACAAATCATCGTTATACAATAACTTGCCTAATCACCCTACCCTGCCTAGTTAACCTAATTAACCTGGTTAAGCCTTTAAATGTCACTTTAAGCTGTATAGAAGTGTATTGAAAATATTTAATAAAACATTATTTACTGTCATCATGGCAAAAAATAAAAGAAATCAGTTATTAGAAATGAGTTATTAAAACTATTATATTTAGAAATGTGTTAAAAAATATTCTCTCCATTAAACAGAAATTGGGGGAAAAATAAACAGGGGGGGCTAATAATTTAGGGGGGGGGGGGGGGTAATAATTCTGACTTCAACTGTATATAAGACTTATATATGTGATTTTTTTTTTCTTCTTTTAGACAAATTTAAAATGTTATCCTAGCTCATCCGTGCTATATAAAGTTGTTACTTTTGCGTTAGGGTAATTAGGCAAGTTATTGTATAACGATGGTTTGTTCTGTAGACTCTCAGGAAAAAAAAAAAAATAGCTTAAAGGGGCTAATAATTTTGACCTTAAAATAGCACTTAAAAAATTAAAAACTGTTTTTATTCCAGCCAAAATAAAACAAATAAGACTTCCTCCAGAAGAAAAAATATGATCAGACATACTGTGAAAAACGTCCTTGCTCTGTTAAACACCATTTGGAAAATATATATATAAAAAATAAATAAATAAATCATTCAAAGGGGGCTAATAATTCTGGCTTCAACTGTACATGTGAGCTGGCTTGAGGCAACTTATGGTAATCTTTGGGTGAACTATTCCTTTAAGTGAAAGAATAATGTCAATAGAAAAGGATGTAAGTGAGTAACCCCATCTCTACCCCTGTCCAG
Seq C2 exon
GTGGCTCACGGAGTTCAGACATGGATGAATACTCAGGAATGAGCAACCAGCTGAACCACCTCAGATAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000044010:ENSDART00000064613:13
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(18.2=100)
A:
NA
C2:
PF0118612=Lysyl_oxidase=PD(1.0=8.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
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]