GgaINT0046304 @ galGal3
Intron Retention
Gene
ENSGALG00000010858 | LRP2
Description
NA
Coordinates
chr7:20248535-20249920:+
Coord C1 exon
chr7:20248535-20248783
Coord A exon
chr7:20248784-20249708
Coord C2 exon
chr7:20249709-20249920
Length
925 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGG
5' ss Score
10.07
3' ss Seq
AATTTCTTTTTCTTTAACAGAGT
3' ss Score
9.5
Exon sequences
Seq C1 exon
ATCAGGAGAGCTGCTCTGATAATAATGCAGGCTGCACTCATGAATGTATTCAAGGACCATTTGGAGCTCAGTGTACTTGTCCTGTTGGATACCAGCTCACAAATGATTCCAAGACCTGTGAAGATATTAATGAATGTGACCCTCCAGGCTTTTGTAGTCAGCACTGTTACAATGAAAGAGGATCTTTTAGATGTTACTGTGATGAAGGATACATTCTGGAAACCAATGGGAGGACTTGTAAAGTGGCAG
Seq A exon
GTGAGGACCACTGATGTCAACCTTAACAATGACAGTAGTGCTAGAAAATGTCCATTTTTTTTCATTTTCATACTGTTATGTTTTAAAAGAGGAGATGCAGCAGCCACTGACAGCCAGCCGTAACAGATCACCCTGAGTAGTAAAACAGCCACGTGAGGGGTTTAATTGGAAACTATTATTTTGTTGAAATACAATATTTAAATTAACATACTGGGTTATTAACTCCACAGTGGTAAAAAAAAAAAAAAAAAAAAAAATAATATTCTGGAAAAAAACAGTGCCAGGCACTTCTAAATCATAAGTTAAAATCTGCTCTTTTATGAAGTTCAGTGCATAGAGAGAGTTTAAATCCCAGTCTTTTCATGAGGTTTAATGCCTATGTCATGTTCTTAATTCCGGAGAGCAAGGAACACTGACCCAGTTGTTCTGTATCTCTTACATAGTGTGCTAGCTGTATTAGAGGAACCATAAACTCATTGTTGCCACGGGGTTCCTGGTTTAGGGATATTCTCAGGTCCTGCAGTCTGAGGAGGGTAGTTTGTGGGACAGAGACCTTTGCAGTTTGAATCACGACTGGGAGTTGAAAGTGACTCAGAGGGAAGTAAGTTCTGGATGTCAGCTGCAAACTGAGAACCCAAGGTCCTGATATAATACTGGAAGGAGAGGCTGTTGGAATAAATGATAGAGAAAGAATAAAAGAAAGCCAGAGTAGATCCCAAGGTGTCAGGATAGACAGAATAAATATGATAAAATATATTTGCCTGAGAATTGATTTTGAATTTGCCATTTCAATCCATGCATCTAGGTATAATTACTCTGATGCTATAAAACCATGTCAAATTACTCAATTATTCATTGTTATTTGTGTAACAGAATAACTGTCAGATAGCTTACTGGTTTATTTAAATTTCTTTTTCTTTAACAG
Seq C2 exon
AGTCTGGGAATCTTCTTTTGCTAGTAGCAAGTCGTAACCAAATTGTTGTGGACAACATCACCTCGCAGTCACACAGTATCTATTCTCTCATTAGGGATGGGAGGAATATTGTGGCTATTGATTTTGATTCAATCTCAGATCGTATCTTTTGGTCTGATACAACACAGGATAAAATTTGGAGTGCTTACCAAAATGGGACTGACCGAAAAGTA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000010858:ENSGALT00000020276:25
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(9.1=4.8),PF146701=FXa_inhibition=WD(100=42.9),PF146701=FXa_inhibition=WD(100=41.7)
A:
NA
C2:
PF0005812=Ldl_recept_b=PU(58.5=33.8)
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:
GCTCTGATAATAATGCAGGCTGC
R:
GCCACAATATTCCTCCCATCCC
Band lengths:
352-1277
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]