GgaINT0046347 @ galGal4
Intron Retention
Gene
ENSGALG00000010858 | LRP2
Description
low density lipoprotein receptor-related protein 2 [Source:HGNC Symbol;Acc:HGNC:6694]
Coordinates
chr7:18330151-18330985:+
Coord C1 exon
chr7:18330151-18330371
Coord A exon
chr7:18330372-18330805
Coord C2 exon
chr7:18330806-18330985
Length
434 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAGA
5' ss Score
10.06
3' ss Seq
TACTGTTTGGTTCTTTTGAGAAG
3' ss Score
1.06
Exon sequences
Seq C1 exon
GCTCATGTACTGGACTGACTGGGGAAGGCAGCCCAAGATTGAATGTGCCTGGATGGATGGACAGCAGAGACGAACTTTGGTCTCTGAAGACCTTGGCTGGCCTACAGGTCTTTCTATTGATTATTTGAACAATGATAGGATCTATTGGAGTGATTCCAAAGAAAATATTATTGAATCTATGAGACATGACGGGACAGACAGAACCGTAGTATTACATGGAG
Seq A exon
GTAAGAATTTATTGTGGAACTCGCGCAGTAGTAACCAAGATGTATGCTTAACAAGCAGGTCGTTTGCATGTGTGGGCTAGATTTTCAAGAGCTTTTCAAAAAGCAAGTCTAGGTAGCATTTTCTCCTCCATTATACAGGGATGTGTGGCACACCAGGTTCAAAGTTCACAATACCTGGAAACCAGATTCCCCAGGAGTACCTGGCCAACTTAGGGACAATATGGAAAATTAGTTTCTTGCTTTTTTAATGTATATTATTAAGCAGTTTGCAGATACCGGTGTTATGAGGTGGTCAGTCATGTGATGATATTTATCTTCTGCTATGAATGTTTTGAAGTGAAAGGTTTAAATGACATGTTTAGTTGAAGAATAGCAGTTGTATTGTTTTTGCTAGAGATTTGCTTGCTGACTGCATACTGTTTGGTTCTTTTGAG
Seq C2 exon
AAGTAGGCAGTCCATACAGCCTCGATGTCTTTGAAGGCCATTTGTATTGGATAGCTAAAGAACGAGGAGAAGTCTGGAAAAAAGATAAATTTGGAAATGGAGAAAAAGTGAAAGTGCTGACTGTAAATCCATGGCTTACTCAAGTGCGCATCTATCACCAGCATAGATACAATCAGTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000010858:ENSGALT00000017651:68
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=WD(100=56.0),PF0005812=Ldl_recept_b=PU(70.7=38.7)
A:
NA
C2:
PF0005812=Ldl_recept_b=PD(26.8=18.0)
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:
GGAAGGCAGCCCAAGATTGAA
R:
AGATGCGCACTTGAGTAAGCC
Band lengths:
352-786
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]