GgaINT0046284 @ galGal4
Intron Retention
Gene
ENSGALG00000010858 | LRP2
Description
low density lipoprotein receptor-related protein 2 [Source:HGNC Symbol;Acc:HGNC:6694]
Coordinates
chr7:18262086-18263197:+
Coord C1 exon
chr7:18262086-18262199
Coord A exon
chr7:18262200-18263080
Coord C2 exon
chr7:18263081-18263197
Length
881 bp
Sequences
Splice sites
5' ss Seq
GCAGTATGT
5' ss Score
5.57
3' ss Seq
ACTGGTGTTTCTTTCCTTAGCTT
3' ss Score
8.52
Exon sequences
Seq C1 exon
CACGTGGATGTGCCAGTACGCAGTTTCAGTGTGCTAATGGAGAATGTATCCCACAGGCCTTTATGTGTGACCATGATGATGACTGTGGAGACAGGAGTGATGAAAACTCTTGCA
Seq A exon
GTATGTGGGTTTTTTTTCCTCTTTCTCTAAATAGTTTAATGAGAGTTAGTTACAGTGCACAGAAGAAAACCAAAATTAAGTTGCTTGGCCATGTGACCATTACAAGTTTGTTGGATGTTCGTGTCAGTTGCTTAATTGGCAGTTCTCTTTCTGTGAATTTCTTGCTCATTCCTTTCTTCATGGTCTGATATTCTAGGATTTTACATCTCCAACCAGTATCATAGCTATAGAGCTGTCAAATGTCTGATCTGTATATTTGCAGAGTTCCCCATTGATTCTAGGATCTGAGCTACTTCTTTCTCCTGTGCTTTTGGAAAGTCACATGTTGTTATTTAGTTTCTGTATCCTACCATGAACTTAACACCAGCACGATTTTTTTTGCATCCTCCCTGTCCCCTCCGATATTTCTCTATTATCTATTTGATGATGTTTGTCCTTTGAAGACCCACAGATGTTTATGAACTCTTAGAAGGGAAAGCTTAACAACCGTGGAGAGCTTTAAACAGAAATGTTCATGAAGCTTTTTACTCTCTTTCTCTGAATATGAGTATCTTTATCTCTAATATCTTGAGTAGCATCTCCTTTTTAAATCCAAATTCAAAAATATTGATAGTAAGGTGCTGTTCATCTTGTTGCAAAATTAATTGAGGAATTCAGCATTTCTTCTCATTTCTAGTAAAACCAAAACAAAAAGCCCTAGCACTCTAGTATTTTAAAATAAAGAGCAAACCAGAACAAAACAGCACTGTTTACAATATATGTAAGTTGCGGAACTATCTCAATTTTACTGGTATAAATGACGGTTCATCTATCAGACAAGGCTACTATTGCCAACCTTTTTGTCACTCAGTAGTTTCATTTACTGGTGTTTCTTTCCTTAG
Seq C2 exon
CTTATGCAACCTGTAGAGGCAACTTCTTCACTTGTCCAAGTGGCCGCTGCATTCATCAGAGCTGGATATGTGATGGTGATGATGACTGTGAAGATAATGAAGATGAAAGAGGATGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000010858:ENSGALT00000017651:5
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:
PF0005713=Ldl_recept_a=WD(100=94.9)
A:
NA
C2:
PF0005713=Ldl_recept_a=WD(100=92.5)
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:
TGTGCCAGTACGCAGTTTCAG
R:
CACATCCTCTTTCATCTTCATTATCT
Band lengths:
223-1104
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]