GgaINT0048813 @ galGal3
Intron Retention
Gene
ENSGALG00000012407 | LRP1B
Description
NA
Coordinates
chr7:33558996-33560187:-
Coord C1 exon
chr7:33560059-33560187
Coord A exon
chr7:33559119-33560058
Coord C2 exon
chr7:33558996-33559118
Length
940 bp
Sequences
Splice sites
5' ss Seq
GTGGTATGT
5' ss Score
7.64
3' ss Seq
ATGTACTGTGTTCTCTTTAGCCC
3' ss Score
8.3
Exon sequences
Seq C1 exon
GTTCAGTGACATGTGCTGTGGGAACATTCAGTTGCCTAGGCTCCCACGCCTGTGTTCCTCACCACTGGCTTTGTGATGGTGAAAGAGACTGTCCAAATGGAAGTGATGAGCTCTCTACAGCAGGCTGTG
Seq A exon
GTATGTTTACCTGATAAGATGTGTGGTATTCCTTTGCTTGGCACTTTTGCCTTTACAATATCCAGATGTTGTTTATTTCTGTAGAGTTATACTTCTATATAGTCAAGATTGTTAGTACAACCACATGGAGCATACATAGCAGGATCCTTAAATGTTTTAATCAGCCTAACATCTTCAGCTTCTGTTAATAGATACTGATGTACGCCAGCTGAAAACAGTGTGTCACATCACACATATTAGACAGCGTGTTTGCTAATGAAAATTAGCAGGTCATTGACTACAGTCTACTTCCTGAAGAAAATGGTGCTTGCATGTGAGACAAGTTGTACATCATAAATAGAGATACACTATCACCTCCCAATTTCTTCTCCCTAATTGGGAGATGCCAACATCTCCCACTTTGCAAAGTATTGCTTTCAGTCATCTGAGACACATTTGTATTGTGTCAAATGTTCAGTAGTAGTTTCATTAGGGGTTTTGTTTTATAACTGTATACAAAAAAGGTGTAGATTAAAAATACTGAAATAGTGTCTCTTCACTTAATACATATTCTGTGATATTGTTTCCAGATTGAGATATATTTTGTGTATTTATGGTTTTTAAAGAGTTTCTGTTCATGAGCAGACTAACACAGGAAGGAAACCTGTACTTTAAAAACTCTGTTTCTCAGAGGCAGACCTTAAGTTGTAGACAGCATCAACTTCTGAAACCTTTCTGTATTGGATTATATGAGAGGCGAGCTACCTGTACTTCTTTGTTCATCACTACTAAGATGCATACATTCTTCTGCCATTTATTTTGTGTAATGATTTACATAAGAAGCAAGTTATTTACGCTGAATACACTGAAACTAACTGCTGGACATTCTTCTGTAAGAAAATTTGTCTGTCTCATTCTTTCCAATTTCATCTCCTTTTTTTATGTACTGTGTTCTCTTTAG
Seq C2 exon
CCCCTAATAACACTTGTGATGAGAATGCTTTCATGTGCCGTAATAACATCTGCATTCCAAAACAGTTTGTATGTGACCATGATGATGACTGTGGAGATGGATCAGATGAATCACTGGAATGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000012407:ENSGALT00000020272:51
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=93.2)
A:
NA
C2:
PF0005713=Ldl_recept_a=WD(100=90.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Cow
(bosTau6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTGACATGTGCTGTGGGAACA
R:
ACATTCCAGTGATTCATCTGATCCA
Band lengths:
246-1186
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]