GgaINT0046338 @ galGal3
Intron Retention
Gene
ENSGALG00000010858 | LRP2
Description
NA
Coordinates
chr7:20286526-20287270:+
Coord C1 exon
chr7:20286526-20286642
Coord A exon
chr7:20286643-20287132
Coord C2 exon
chr7:20287133-20287270
Length
490 bp
Sequences
Splice sites
5' ss Seq
GTCGTGAGT
5' ss Score
7.82
3' ss Seq
AATAATTTTATATTTTTCAGCAA
3' ss Score
7.01
Exon sequences
Seq C1 exon
AGCTGAGGACCTGCCACCCAGGTTATTTCCAGTGTAATAGTGGACACTGCGTTGCAGAGCGCTTCAGATGTGATGGAAATGCGGACTGCCTTGATTTCTCTGATGAAATAACTTGTC
Seq A exon
GTGAGTTTCAAGTTTTGCAATTGGTGCTCATTGAGCTTACTTCCAGAAGGAGATGCACTTTATTGTTTCTTTTGCATGAGATGACTCCTTAGAGGTACTGAATTCTGCAGCAGCAGGTGATGTCAGTAGAAGTTGAGGAGAATCGTGTTCTGAATCAACTTTTTAATATATTAGTAGGTTGCCTTCTCTTACATTAATTGTAAGCACAGTTGTAATGCTAGGAAATCAGTATGTTTACCAGGTCCAGCAGAAGGTAGATGTGATTGAATTAAAACTCTTGACTATCCCACTTACGCTGCAAGGTCCACTGTTTCTGGTTGACCTGTATTCTAACAAGGTTTTGTAATGAAATGGGATTTTATAATGCTCAAAGGAGTGGATAGCTTCTATCTATCGATTCCTTCTATCTATTGATCTGCAGTGTAGAAATACCCAAGTATTTGTATTACAATAGTTAATAATAATGTCATAATAATTTTATATTTTTCAG
Seq C2 exon
CAACACGGTATCCTAATGGTACATACTGTCCGCCCATGATGTTTGAATGTAAAAACCATGTCTGTATCCAGCCGTACTGGAAATGTGATGGTGACAATGACTGTGGAGATGACTCTGATGAAGAACTTCACCTTTGCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000010858:ENSGALT00000020276:59
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=92.5)
A:
NA
C2:
PF0005713=Ldl_recept_a=WD(100=83.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGCTGAGGACCTGCCACC
R:
AGCAAAGGTGAAGTTCTTCATCAGA
Band lengths:
255-745
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]