DreINT0090720 @ danRer10
Intron Retention
Gene
ENSDARG00000102506 | lrp2a
Description
low density lipoprotein receptor-related protein 2a [Source:ZFIN;Acc:ZDB-GENE-050119-2]
Coordinates
chr9:48859775-48860250:+
Coord C1 exon
chr9:48859775-48859941
Coord A exon
chr9:48859942-48860106
Coord C2 exon
chr9:48860107-48860250
Length
165 bp
Sequences
Splice sites
5' ss Seq
CCGGTAAAG
5' ss Score
6.84
3' ss Seq
TGTATTATTTCTCTTTACAGGGG
3' ss Score
10.19
Exon sequences
Seq C1 exon
TTGAGGATCCTTTCCTGGTGGTAGTGAGAGACAGCATTATTTATGGCATCCCACTCAACCCTAACGACAAGAGCAATGATGCCATGGTGCCAGTCGCTGGGCTGCTGAATGGATACGATGTTGACTTTGATGATGCTGAGCAGATGATCTACTGGGTGGAACATCCG
Seq A exon
GTAAAGCATGCATACACGAAATAAATACGTATTTTTATGTATTTAAATTTTTATGTTGTGCAAGCACAAGCAATCATTTTCTGGCTGCAGTTCACTTAATGGTCACCGGTGTCACTGATTGCAATATGTGTTGTGTAGTAACGGCTGTATTATTTCTCTTTACAG
Seq C2 exon
GGGGAGATTCATCGGGTGAAGTCAGATGGTACCAACAGAACTGAGTTCGCACCAGCAGCTATTTTGGGGTCTCCAGTGGGTCTGGCTCTGGATTGGATGTCTCAAAACCTGTACTACTCCAACCCTTCATCACAGGCTATAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000102506:ENSDART00000167243:32
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=0.083
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCCCACTCAACCCTAACGACA
R:
GCCTGTGATGAAGGGTTGGAG
Band lengths:
256-421
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]