GgaINT0059804 @ galGal4
Intron Retention
Gene
ENSGALG00000006998 | LRP5
Description
low-density lipoprotein receptor-related protein 5 precursor [Source:RefSeq peptide;Acc:NP_001012915]
Coordinates
chr5:15761906-15763140:+
Coord C1 exon
chr5:15761906-15762302
Coord A exon
chr5:15762303-15762968
Coord C2 exon
chr5:15762969-15763140
Length
666 bp
Sequences
Splice sites
5' ss Seq
GGGGTAAGT
5' ss Score
9.65
3' ss Seq
TTCTGCTGTTTTCTTTACAGCTA
3' ss Score
11.62
Exon sequences
Seq C1 exon
GTGCTGAAGAAGTGTTGCTGCTTGCTAGGAGGACTGACTTGAGAAGGATTTCCTTGGACATGCCAGATTTCACTGACATTATTCTGCAGATAGACAATATCAGGCATGCAATTGCCATAGACTATGATCCTGTGGAAGGCTACATCTACTGGACTGATGATGATGTTCGGGCAATTCGTCGGGCGTACCTTGATGGCTCTGGAGCACAGACTCTGGTAACCACAGAAATCAACCATCCAGATGGTATTGCTGTGGACTGGGTGGCAAGGAACCTGTACTGGACTGATACTGGAACAGACCGCATTGAAGTGACCCGTTTGAATGGAACATCAAGAAAGATCCTTATATCAGAAAATCTGGATGAACCTCGTGCAATTGTGCTCAATCCTGTGATGGG
Seq A exon
GTAAGTTTTATTTTCATTGGTGGCCCTGCAGTAGTAGGCTTTGGGGTCCAGTTTTGCCCTCTTCAAACTGAAAATCTGCAAATTACAAATGATGTGTATATTATTTGTCAAATATTCATTTTGTTCTAGACATGACAAGCTCTCCCTTGCTTCATCCAACACGTACATAGGCATGTAGAAGGTGACTGTTAAATAGTATTCTTAAATGAAAATGTGTTGTATGTTTGGTTGAATTTTATTTTCTCTGTATCTTCAACATAATAGCTATTAAGGAATCAGGCCACTGCACACTTTCAGTACTTTGATTTAGTTAACAGTTAAACTGTAGATTATCATTACTGGTTGCAGAATTTACAGGATGGCTGAGGTGGGTAGGGGTTAGAACTGGATGACCCATCATGTTCCTTTCAATCCAAGCTATATTCTATAATCTAGTCCAACTCCACCCAAGCAGGGACATCCGGAGCAGGGTGCCCAGGGCTGTGTCCAGGCAGAGGAGGCTCCACAGCCTCCCTGTGCAGAAAGGTTACAGTTAAAGTTGGTTGGTTTATTTGCTACAGTTTGGAAAGCAGGAAGTTAGCAAGTTCTTTCCAAAACAGAACAGATCTTAACACTTTCTGTATTGCAGGTTATGTGCATTGACTGTTTCTGCTGTTTTCTTTACAG
Seq C2 exon
CTACATGTATTGGACAGACTGGGGTGAAAGTCCAAAGATAGAATGTGCTTATTTGGATGGATCAGAGAGGAGAGTTCTGGTGAATACGTCCCTGGGTTGGCCTAACGGCTTGGCACTGGATCTTGAAGAGGACAAACTTTACTGGGGAGATGCCAAAACAGATAAAATTGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000006998:ENSGALT00000011330:5
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:
PF0005812=Ldl_recept_b=WD(100=30.8),PF0005812=Ldl_recept_b=WD(100=30.8),PF0005812=Ldl_recept_b=PU(0.1=0.0)
A:
NA
C2:
PF0005812=Ldl_recept_b=WD(100=72.4),PF0005812=Ldl_recept_b=PU(33.3=22.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATTCGTCGGGCGTACCTTGAT
R:
TTCAAGATCCAGTGCCAAGCC
Band lengths:
351-1017
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]