GgaINT0059806 @ galGal4
Intron Retention
Gene
ENSGALG00000006998 | LRP5
Description
low-density lipoprotein receptor-related protein 5 precursor [Source:RefSeq peptide;Acc:NP_001012915]
Coordinates
chr5:15795833-15797581:+
Coord C1 exon
chr5:15795833-15796049
Coord A exon
chr5:15796050-15797291
Coord C2 exon
chr5:15797292-15797581
Length
1242 bp
Sequences
Splice sites
5' ss Seq
TTGGTAAGT
5' ss Score
10.47
3' ss Seq
TGTTTTGTTTTGTTTTTAAGGAA
3' ss Score
10.76
Exon sequences
Seq C1 exon
GTCATAAATGTTGATGGAACAATGAGGAAAACCCTCTTAGAAGATAAACTTCCACATATATTTGGGTTCACGCTGCTGGGTGATTACATTTACTGGACTGACTGGCAGAGGCGAAGCATTGAAAGAGTTCATAAGATAAGGGCTAGCAGAGACATTATTATTGATCAGCTGCCAGACTTGATGGGCCTTAAAGCAACAAGCGTTACCAAAGTTTTTG
Seq A exon
GTAAGTGTGATCAGTCATAGGGTGAGTCTAAAGTAGTTTCTAGAAGCTCTTGCTTTCACTAAGCAGCTATTCATCACTTGTGATGAGAATAACTATGGTCTTTAGTGTTTGAAACATTTTAAAGGAAACCTGCACTTGTTTTTTATACAGTTGGGAAAAGAGAGTGTTGTAAAAAAAAAAAAAAAAAAAAAAAAGAAAGAAAAAGAAATTTGGGCTTCCAATTTTATAATGATATTCAGCATAAGTCCTCTGTAGCTTCCACCACAGTCTGAATTTTTGTGAGAAGAATTTTATTCCTGGCTCTGATCTCTAGAATTTGTGGTACTCACAGGATTGCACCATTTTCTGTTGCCCTTTTCCAGTACCAAGTCCCAGTGTTCTTCCATTGGCAGATTACATTTTACTACATGGAATGATAGAGGCAGAGTTAGTGGCTATTACAGAGATACCTGAATGCAAATGGCACTCTTAATTTTGAACATCTCAGCAATTAAATCTTGCCCTGAGTGATTAGCAAGTAGACTGAACTGTAGAAAACTCTCAATCATGTGGAACTCTTCATTTTACTATTGAAGGACTGTCAAGTCTTCAGATTGTAACTTGGTCTAAGTTGCCATAAGTCTGTATGCCTTAAAAAGGGAAAACCAAAAGCTGGGTGAGACTGATCTTGGAGATATTTTTGTGCTAGCATGTCTTTAGCTAAATCCCTGGTTCCAACTGATGGAGAAAGACACTCTTTTTTTTCTTTTGATCCTTACTTTTCCCTCCTTATTCCTGCACTGCCTTGTCATGGTCGTTGACTTGAACAAAGTAAATGAGAGATTGTAGTGATTGAACAGCTGGGAAAGAGCTGCAGTTACCCAGTTCTTTTCTCATTATTTTGTATCATGGGACTCAGACACATTTTTAAAGCTGATGATTTCAAAGAGGTATAAAGATGGAGTTCCGGACCAAAAATAGCTAGGCTGAATGTGGGTAATTGCTTGCTTTCAATAAAGGAACTAGCCTTTGGGGAAGCTGTAAAATATCTTTGTGGCAGTTCTTCATATATAGGAAGGGGATGGGACCAGCCTTCTACTGCCTGGCTAGAGGAAAAGAACCAGTTTTGAATGGCTCTGTTAACAGTCCATAAGGTTAACTTATTTTGAAAATTTATAGTTGCACTACATTTTCACTCAGCTTTACCCCTCCTCTTCCCCCATCTCCATAATACGCCAATATCTGTTTTGTTTTGTTTTTAAG
Seq C2 exon
GAACTAATCCATGTGCAGAGAACAACGGAGGCTGCAGCCATCTGTGTTTCTTTACACCCCAGGAGACCAGGTGTGCCTGTCCCATTGGCCTTGAGCTGTTGAGTGACATGAAGACTTGCATCATTCCTGAAGCCTTCTTAGTTTTCACAAGCAGAGCAGCAATTCATAGGATTTCCCTTGAAACCAATAATAACGATGTTGCTATTCCTCTTACTGGAGTCAAGGAGGCATCTGCTCTGGATTTTGATGTTTCTGATAACAGAATCTATTGGACTGATGTTAGTTTGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000006998:ENSGALT00000011330:7
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=PD(61.5=32.9)
A:
NA
C2:
PF146701=FXa_inhibition=WD(100=37.1),PF0005812=Ldl_recept_b=PU(24.4=10.3)
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:
TGACTGGCAGAGGCGAAG
R:
AGAGCAGATGCCTCCTTGACT
Band lengths:
357-1599
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]