GgaINT0048850 @ galGal4
Intron Retention
Gene
ENSGALG00000012407 | LRP1B
Description
low density lipoprotein receptor-related protein 1B [Source:HGNC Symbol;Acc:HGNC:6693]
Coordinates
chr7:31356393-31357623:-
Coord C1 exon
chr7:31357479-31357623
Coord A exon
chr7:31356492-31357478
Coord C2 exon
chr7:31356393-31356491
Length
987 bp
Sequences
Splice sites
5' ss Seq
AAGGTAATT
5' ss Score
8.83
3' ss Seq
AAAATTTTCTGTTTATGCAGGCC
3' ss Score
6.87
Exon sequences
Seq C1 exon
GACAAAAACTATAAGACGGCAACCCATTATAAATGGAGGAATCAATGTTGAAATTGGCAATCCATCATATAACATGTATGAGGTGGGCCATGATCACAGTGAAGGTGGTCTTTTAGCCTCTGATTTTACTGTAAATGCAGAAAAG
Seq A exon
GTAATTTTTTCTTTTTCTAATGGCCAATATGCTACTTATTTTTTGTCTTACATGATACTGGCTTTGAATACAATTAATAGGAACAAAACAGTGATAGTTAGATTTAACTACACAACAAAGACAAGTTAGATTTAATTAGAAAAATACTTCATGTGTATATTAACGTTTGTTTTTCAGTCTGATTTCTAATGGACATTGTTTTCTAGTGCCTGCATTTTACCAAAATAGTGTTGGAACTAAGCTACTAAATGAGTTTTTTTTTTGTCATGGAATTAATACTGAATGGAAGTATGTTATTATACAGTCTAGATTTTGAAGTGTGAGAGAGTGCAATTATACTCAGGAGATTTAACTACTTATACACCAACTTTCAAAAGCATAAAGAATTCAGAATCCTGGCTGGATAGATTAAATGTTTACACAAAACTTGTAAGTATTACTATTTTTTTTTTTGTAAAAGATGCTGTCATTTCTGCAGCACCACTCCTCAGTGATTGAACATCCTGAGTGATGTGACATGGGATGAACAGGGTAATGCTTTGATATCTTTCCTAGAGCTCTGTAATCAGACATACACCAAAGGGCAGCCATCGTTCTGTGGCATTTCTGACAAAGCAATAACCGGATTACTGTTAGCTCTAGGAATGTCATCTCTGAATCACATAGTCAGTGTGCAGAATACAAGAGGTAAGCTGAAAATGGAGTTACTCCCTGGAGAATGAGTAACTGAAGTAATGCTCTAATCCTTCATGGAAAAAAAAAAATAAGATTTTAAAATGCTGAATTCTATTCTGGTACTGAAACCAACAATTTCTCAAGCTGAAGAATACCTGTTATGAGATTATTTTTCTTTTTTTTTTTTTTTTTTTTTACTATACATCACTCCTGAAATAATGGTTTCAATCAGTACACTGTTTATTTAACAGTGATAAGTACACATGGAAAATGCTCTATTAGCACAGAAACTAAAATTTTCTGTTTATGCAG
Seq C2 exon
GCCAGATACATAGGGGGAGGGCCCACTGCATTCAAGCTTCCCCACACAGCTCCTTCAATCTACCTAAACTCTGACTTGAAAGGACCACTATCAACAGGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000012407:ENSGALT00000020272:90
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:
NO
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:
AAACTATAAGACGGCAACCCA
R:
CCCTGTTGATAGTGGTCCTTTCA
Band lengths:
239-1226
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]