GgaINT0046286 @ galGal3
Intron Retention
Gene
ENSGALG00000010858 | LRP2
Description
NA
Coordinates
chr7:20228142-20229526:+
Coord C1 exon
chr7:20228142-20228285
Coord A exon
chr7:20228286-20229406
Coord C2 exon
chr7:20229407-20229526
Length
1121 bp
Sequences
Splice sites
5' ss Seq
GCAGTATGT
5' ss Score
5.57
3' ss Seq
CTATTTCATTTCCTTTTTAGACA
3' ss Score
9.03
Exon sequences
Seq C1 exon
AAAGTAGTTATCATGAATGCTACCCGGGAGAGTGGGCCTGCCCTGAGTCAGGGCATTGTATTCCAATTGGGAAAGTGTGCGATGGAGCTGCAGACTGCCCTGCAGGAGAAGATGAAACGAACATCACGGCAGGCAGACATTGCA
Seq A exon
GTATGTATTAGAATCATAAGTGTATACAGAACAGCAGAAATGTCAGAATGGATATATTTTTACATTCACATCAGTGTATTCTGAGCCTTGGTTAAGTCACTTGGATTAGGGTTTTCAAAAATATCTTTTCACCTGGAGTGTCTGGTTCTTCAGTTGGTGTTGCTACTGAGTTTTCTCTCTTGGAAACGATGAGCTTGCATAGTTTTTCTATTAATTTCACTCTTGTGAACATTGATTCCCTCTGAGTTTTGGGATGTAGGGTGTTTCACGTTTTCAATTTCCTCATTTTGGAATATGAGGGAGGACAGAAAAAAAAAATAGAGACTTTAAACCTTGTCATGGAATAGTACCTTTTGCTTTGCTGAGTGATGTAGTTGTAACATTGGATGTAGGCTGCAAAATGAAGTTTATCAAGATGTATAAGGAAAAGAAGGATGAAAAGAGTAGAAAGAAGTCAGCAAGTGCTTTACAATCGTAATTTCATTACCTATCACTGTTTTTTAGTTACAAAGAAAGGGAAGAGTGATGAAGGCATTTTTGCCTTCCTTCTTTTGAAGGAAGGAAGGAAGAGAAGAAAAGGATAAAGTGTTCTTCCATGGATAAAGCCCAACCAATATATTCTAATATATTGGAATAGCATGGATATTCTTCTTAATATAATGCAGTACATTATTTTTTCAGCATAAAACAGCAAATGGTGAGGTTATGTTCTAATAAGTGGAGCTCAAGGATATATTGTTCACAAGTACATTTCGTGGAACTGGAGAGAATTATGGTGCACTGTAGATAGCTTCCACTGTGCAGCTATTTACATGGTATTCTTACTTATTTTCTGCATCTCCTGTAAGATTGATACTTATCCTTGAGCTCCATTCTAAGCCCTGTTATAAACATTAGTGTAATTCCTGTCTTCTATTTTCTTGCTGGCATGTATGTAAGCATATGTGATTTTTATGGAACCTTAGACGTCTTTTCCGGTGCATACTTGTTTTAAGAAGCTGTTTCTGAAGTGGGAGACTCATCATAGAAAAGGCTATAGCTTTGTAACTGTCAGTAGGGCAGAACTGTTCTGCCAGTAATACCAGTAATTGTATTTCTGAACTATTTCATTTCCTTTTTAG
Seq C2 exon
ACATATCACACTGTGCTGCTCTGAGCTGCCAGTATCGCTGTCATTCTTCTCCTTCAGGAGGGATGTGTTATTGCCCTTCGGGATATACAATAAGTAGCAATGACAGTCGTACTTGTATTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000010858:ENSGALT00000020276:7
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=89.8)
A:
NA
C2:
PF126622=cEGF=PU(90.6=70.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGTAGTTATCATGAATGCTACCCGG
R:
CAATACAAGTACGACTGTCATTGCT
Band lengths:
262-1383
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]