GgaINT0048822 @ galGal4
Intron Retention
Gene
ENSGALG00000012407 | LRP1B
Description
low density lipoprotein receptor-related protein 1B [Source:HGNC Symbol;Acc:HGNC:6693]
Coordinates
chr7:31425913-31427024:-
Coord C1 exon
chr7:31426836-31427024
Coord A exon
chr7:31426062-31426835
Coord C2 exon
chr7:31425913-31426061
Length
774 bp
Sequences
Splice sites
5' ss Seq
ATGGTAATT
5' ss Score
6.49
3' ss Seq
TTTTCCTATTCTATCCACAGTGT
3' ss Score
10.47
Exon sequences
Seq C1 exon
TCCCTAATCAAGATATTCCAGGGGTGATTGCACTAACGTTGTTTGAAGACTACATCTACTGGACAGATGGGAAAACCAAATCACTCAACCGTGCCCACAAAACCTCTGGATTAGACAGACTGTCACTGATTAACTCCTGGCATACCATAACTGATATACAGGTGTATCATTCTTACAGGCAACCTGATG
Seq A exon
GTAATTATTCCATATTTTCTGTTCAGCACATTGATATATTTTACATAGAAGCCAGCTGCTGAATTAACTGAAGATTATTTATAACCGGTGATGTATTTTTTTCTGTATTATTTTGAATTTTAGAAGTCTTTGAGTGAACTTTTTAAAATATAAATCTGTGATTAATGTTGTAAGTATATCTATTATTAAATAAATGTATTATAAATTGTTCAGTGATGAGATATCCTATGAGTTTTATAGATACTGATGGGAATTACAGGATTGTAAATTTGTGTTAGAGTCCAAGTTATCAGTTATAAAGATCAGAACAGTGTCATGAAGACATTTAGCGTTATTATTGCAAAAGTAGGAAGAGTGTTAATACAGAAGAATACTGTTGCTTAGAAGCCGGAGACTGAGAAAATGCCTTGAGAGTGTAGGTGTTATGGTTGCATCCACTCTAATGTCCATCTATTGGAATTCTAGATGATTGCAATCTGGCACTTGACCCACATTAGCTGATTTTATTTTTTGTCTCATTATTACATATCTTTTTTTAAAGTTCTTTTTTCTTCCTCTCATTGTTTCATTACTGAATATACATCCTTTGTAATAACTGCTGCACACAAAAGAAACAAATAGCTTAAAGGCAAAAAAAATAAAAGGGGGGGGGTTTGTTATAAGACTTTCCATTGTAAAACTAATGTGTGTATTATAATTTTATTCTATGAAGCAGATACTCAGAAGTAAACAGAAATAATACGCTCTGATATTCTTTTCCTATTCTATCCACAG
Seq C2 exon
TGTCTAAACATCTGTGCACAGTAAACAATGGTGGTTGCAGTCATTTATGCCTTTTAGCCCCTGGCAAGATGCATACGTGTGCCTGTCCCACTAACTTTTACCTTGCTGCAGATAACAAGACATGCTTATCAAATTGCACTGCCAGTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000012407:ENSGALT00000020272:62
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:
NO
A:
NA
C2:
PF146701=FXa_inhibition=WD(100=74.0),PF0005713=Ldl_recept_a=PU(15.8=12.0)
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:
TCCCTAATCAAGATATTCCAGGGGT
R:
CTGACTGGCAGTGCAATTTGA
Band lengths:
338-1112
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]