GgaINT0046312 @ galGal3
Intron Retention
Gene
ENSGALG00000010858 | LRP2
Description
NA
Coordinates
chr7:20259660-20260828:+
Coord C1 exon
chr7:20259660-20259769
Coord A exon
chr7:20259770-20260650
Coord C2 exon
chr7:20260651-20260828
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:ENSGALT00000020276:33
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
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]