GgaINT0046341 @ galGal3
Intron Retention
Gene
ENSGALG00000010858 | LRP2
Description
NA
Coordinates
chr7:20288840-20290185:+
Coord C1 exon
chr7:20288840-20288968
Coord A exon
chr7:20288969-20290053
Coord C2 exon
chr7:20290054-20290185
Length
1085 bp
Sequences
Splice sites
5' ss Seq
GCAGTAAGT
5' ss Score
9.07
3' ss Seq
CTAATTTATGTTATTTTCAGACC
3' ss Score
7.52
Exon sequences
Seq C1 exon
GTAGAGAACCAACCCCAAGACCTTGTACAACTGAAGAATTCAAGTGTAGTAATGGAAATTGTATTCCTCTACATTATGTCTGTGACAATTATGATGACTGTGGAGACCATTTTGATGAAATGGGCTGCA
Seq A exon
GTAAGTAATAATAGAATACAAAATTTCAATGCTATTAAAATAAACGTTTCAGGAGCAGTACATGTTTCTTGCATAGAATACTAGGAAGTATTAATGTTGAATTAGCCTGTGAGAGGTTTAATCTGATCGGCCGTGCCAATATCATTTTTTAAACTTCTTTGAGGGAAAGTCTTAAGAAATTCAGTGCTGATTTCTGTTTCACATACATTCCCATGGTCAGATGTTAACATTCATAATCTTCCCAACATCAAAAACCTGAGATGTTTAGAGAAAAGCTTTTTGTGTGTGTACAAAGAATTTATATTTCTATATATATATATTGAATTGAGGTGTTTAAATTAGCATTGGGATGTACATGTTATAAGTGAGATAATGAGCTTAATGTAATGTCTTAGTATCTTTTCTTATGCTCTGTCAATAAACATGTATTACTTCTTTCCTACTTACATACAGTGTATCTAAATATGAAGGAACGTTGTATATATGTAAAGTATGTAAAAATCCATTTAATTCTGTTTGTACTCTGAGAAGAATAGTCTTCTGTCTGTCATAGATTACCTATCATACTTCACTTGCCTTTTCCATTATAGGCATGTCTCAAAGGGTAGTGCATTCTATACAATGACCTATATTGACTTCAGAAGGCTTTAAATGAGGTACTGGGTGACCAAGCTATCTGTGCCATGTATGGTAGCAATTAAGAACACTTTTTGCTTAGATGATAAGAAAAGAATAGATAAGGAGGTGGATTGGCCAAGCTAGGAGTTAGTCAAGTTTGTTAAATAGATTCTGCAGTTGCTGCAGATACTGTTGAGGAGCTGAGCATGGTTGATTATGACTATTATCCTGACCCTGATCACCTGCTTCTACAGGTGAAACTATTCTTAGTTGACTCTTGACTGGTGCTTACTGTGCTCTGTAAGTTACTTATAAGATAAGATGTTCACATTAATTGGATTTTGCTTAGGAAAATAACACTGTCATTGAAAATAGCTTTCATGTAGTCAACGATAAAAATTATTACTTCCTGATCGCTTCTTTTGTTGTTGTTGTTGTTATGAATGTCTAATTTATGTTATTTTCAG
Seq C2 exon
ACCCTGGAACAGAACGAACTTGTGCAGAAAATATCTGTGAACATAACTGTACCAACTTGAACGAAGGAGGCTTTATCTGTTCTTGTAGGCCAGGTTACAAGGCCAGTGAAAATAACCGAAACTCCTGTGATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000010858:ENSGALT00000020276:62
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:
PF0005713=Ldl_recept_a=PD(0.1=0.0),PF0005713=Ldl_recept_a=WD(100=84.1)
A:
NA
C2:
PF126622=cEGF=PU(84.0=46.7)
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:
AGAGAACCAACCCCAAGACCT
R:
CAGGAGTTTCGGTTATTTTCACTGG
Band lengths:
254-1339
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]