GgaINT0046312 @ galGal4
Intron Retention
Gene
ENSGALG00000010858 | LRP2
Description
low density lipoprotein receptor-related protein 2 [Source:HGNC Symbol;Acc:HGNC:6694]
Coordinates
chr7:18294317-18295485:+
Coord C1 exon
chr7:18294317-18294426
Coord A exon
chr7:18294427-18295307
Coord C2 exon
chr7:18295308-18295485
Length
881 bp
Sequences
Splice sites
5' ss Seq
GGGGTAAAT
5' ss Score
4.46
3' ss Seq
AATGTGTTCCTGTGTTACAGGAA
3' ss Score
10.69
Exon sequences
Seq C1 exon
GTCCTGAAGCTGCACGGTGAAGTAATGTACAGGAAAACTCTGATTACCAATGATGGTACCTCTCTTGGAGCTGGCACGCCGATTGGTTTGACAGTTGATCCAGCAAGGGG
Seq A exon
GTAAATTACTAAAATTGCAGTTGTATTTGCACTTGAATATGTGTTCTACATTTTTCTTAAAGTTTAAGGTCTTTAGATTCAATCCTGGATTTGATATAGGGTTTTTTTTTTTTTAATTTATTCTTTCAAAGGCCTAGAAAATAATTGCATGACTACATAAATTGTTGGATGGGTGTCCGTTCTCCTTAATTTACCATATACTTCACCTTCTTTTTAATTAAAAAAGATCTCAGAATCACTGTAATAAAAACATTAAAAAAAAATACTAAAACTCCGTAAAATGGGGACCCAGAATAAAGAGAATTATCAATTATTAATATCTTGTGATTTCTGTTCTTACGCTTATTGATAATAACACTATATGGGAGAAATGTCAGATACTAAACAGCACAATACTGAACATGACTTTAGTGCTCTGTCCCTGGTACAAAAATGCACTATGCACTTATAAGCTGCTCTTCAGCAACTGGGGCCGGAGCAGTGCACACATTCCTCAGAGCCAGTTTTTGAACTTGCAGTTTTAATTCTAAATTGGAACCAAATTTACTGTTGAAACTGCAACCATCTATGGAACAGAATTATTATTCTCCTACCTTCTTGTTATACTCCCAACAATCTTCTGAGCCTGCCTCCTGACATATGGTAGATGATACAGGAAAGAGTATATGGATTTCTAAAAATGGTTTAACAAGCATTGTTCTTCCAAAACAAGATCTCTTTTCTTCATTGAGGTTCAGTTCTAAGTGATTTGTATTCATCATGTGCCAAAGTATTTGGCATAGGAAGGAGATGGGTTTAAGCATATGCTTTATTGTCTATGCGCCATTGATTTCCATCACCAGCTTTGCTAATAGATGTGATAATGTGTTCCTGTGTTACAG
Seq C2 exon
GAAGCTGTATTGGACAGACCAGGGAACTGACAGTGGAGTTCCAGCAAAGGTTGCCAGTGCAAACATGGATGGGTCAGGTATTCAAACCCTCTTCACTGGCAACCTTGATCATGTAGAGTTCATTACCATTGATATTAAAGAACAGAAGTTGTACTGGGCTGTCACAAGCACAGGAGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000010858:ENSGALT00000017651:33
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=0.033
Domain overlap (PFAM):
C1:
PF0005812=Ldl_recept_b=PU(0.1=0.0)
A:
NA
C2:
PF0005812=Ldl_recept_b=WD(100=76.7),PF0005812=Ldl_recept_b=PU(28.2=18.3)
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:
CCTGAAGCTGCACGGTGAAG
R:
CACTCCTGTGCTTGTGACAGC
Band lengths:
286-1167
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]