GgaINT0046304 @ galGal4
Intron Retention
Gene
ENSGALG00000010858 | LRP2
Description
low density lipoprotein receptor-related protein 2 [Source:HGNC Symbol;Acc:HGNC:6694]
Coordinates
chr7:18283416-18284801:+
Coord C1 exon
chr7:18283416-18283664
Coord A exon
chr7:18283665-18284589
Coord C2 exon
chr7:18284590-18284801
Length
925 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGG
5' ss Score
10.07
3' ss Seq
AATTTCTTTTTCTTTAACAGAGT
3' ss Score
9.5
Exon sequences
Seq C1 exon
ATCAGGAGAGCTGCTCTGATAATAATGCAGGCTGCACTCATGAATGTATTCAAGGACCATTTGGAGCTCAGTGTACTTGTCCTGTTGGATACCAGCTCACAAATGATTCCAAGACCTGTGAAGATATTAATGAATGTGACCCTCCAGGCTTTTGTAGTCAGCACTGTTACAATGAAAGAGGATCTTTTAGATGTTACTGTGATGAAGGATACATTCTGGAAACCAATGGGAGGACTTGTAAAGTGGCAG
Seq A exon
GTGAGGACCACTGATGTCAACCTTAACAATGACAGTAGTGCTAGAAAATGTCCATTTTTTTTCATTTTCATACTGTTATGTTTTAAAAGAGGAGATGCAGCAGCCACTGACAGCCAGCCGTAACAGATCACCCTGAGTAGTAAAACAGCCACGTGAGGGGTTTAATTGGAAACTATTATTTTGTTGAAATACAATATTTAAATTAACATACTGGGTTATTAACTCCACAGTGGTAAAAAAAAAAAAAAAAAAAAAAATAATATTCTGGAAAAAAACAGTGCCAGGCACTTCTAAATCATAAGTTAAAATCTGCTCTTTTATGAAGTTCAGTGCATAGAGAGAGTTTAAATCCCAGTCTTTTCATGAGGTTTAATGCCTATGTCATGTTCTTAATTCCGGAGAGCAAGGAACACTGACCCAGTTGTTCTGTATCTCTTACATAGTGTGCTAGCTGTATTAGAGGAACCATAAACTCATTGTTGCCACGGGGTTCCTGGTTTAGGGATATTCTCAGGTCCTGCAGTCTGAGGAGGGTAGTTTGTGGGACAGAGACCTTTGCAGTTTGAATCACGACTGGGAGTTGAAAGTGACTCAGAGGGAAGTAAGTTCTGGATGTCAGCTGCAAACTGAGAACCCAAGGTCCTGATATAATACTGGAAGGAGAGGCTGTTGGAATAAATGATAGAGAAAGAATAAAAGAAAGCCAGAGTAGATCCCAAGGTGTCAGGATAGACAGAATAAATATGATAAAATATATTTGCCTGAGAATTGATTTTGAATTTGCCATTTCAATCCATGCATCTAGGTATAATTACTCTGATGCTATAAAACCATGTCAAATTACTCAATTATTCATTGTTATTTGTGTAACAGAATAACTGTCAGATAGCTTACTGGTTTATTTAAATTTCTTTTTCTTTAACAG
Seq C2 exon
AGTCTGGGAATCTTCTTTTGCTAGTAGCAAGTCGTAACCAAATTGTTGTGGACAACATCACCTCGCAGTCACACAGTATCTATTCTCTCATTAGGGATGGGAGGAATATTGTGGCTATTGATTTTGATTCAATCTCAGATCGTATCTTTTGGTCTGATACAACACAGGATAAAATTTGGAGTGCTTACCAAAATGGGACTGACCGAAAAGTA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000010858:ENSGALT00000017651:25
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:
PF0005713=Ldl_recept_a=PD(9.1=4.8),PF146701=FXa_inhibition=WD(100=42.9),PF0764510=EGF_CA=WD(100=46.4)
A:
NA
C2:
PF0005812=Ldl_recept_b=PU(58.5=33.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCTCTGATAATAATGCAGGCTGC
R:
GCCACAATATTCCTCCCATCCC
Band lengths:
352-1277
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]