GgaINT0048796 @ galGal3
Intron Retention
Gene
ENSGALG00000012407 | LRP1B
Description
NA
Coordinates
chr7:33596011-33598400:-
Coord C1 exon
chr7:33598269-33598400
Coord A exon
chr7:33596146-33598268
Coord C2 exon
chr7:33596011-33596145
Length
2123 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAAT
5' ss Score
8.76
3' ss Seq
TTTTCATTATGTCTTTATAGGTA
3' ss Score
10.33
Exon sequences
Seq C1 exon
GTATAGAATCATTTATTATGTATTCTGTTCATGAAGGGATTAGAGGAATTTCTCTTGATCCAAATGATAAAATGGAAGCTTTAATGCCTGTATCTGGAACCTCATTTGCAGTGGGCATAGACTTCCATGCAG
Seq A exon
GTAAATATTCTGCATGTTCTATTGTATGTGTGTTACATATTTTCTACTGCTTTAAAAAATGGAAAACAATTCAAAACTTCTAAACAGACCTCTTCCTTCTTGTTTAATTTGACTGCTTCATCACACAAATATCACTTATCTTTTACCAACAAGTAAAAATTCATTACACTCTTCTCTACCTTTGGCCTACCTTCTTCGTTAATGGTTTTGTACATCTACTTAGCAAAATTTCAAGTTCACTTAGTATTTCATAGTGCCTTCTTACTTGCATATTTTACCTTCAAATCAGTGCCAGGTAGTGCTCAGAGCTTTAGTTATATCATAGGATGTCATTTGCTGTCTGCTGGATATAAAAATCACTTTGAAAAATAGTGCTTTGTACCTGAGAGTTTACTGTATCAAATAGTGCTTTTGTGCTCTTTGTATCTATTGTAGTTTCCATGGAAATAAATAGGAGGCATTACTTTTGAAGAAATCAACCGTAATATCCTGAAGTACAGCATATTATTGGAATAATGTATGGAATATTATTTTTATTTGTAACCCACAGGAATCCTTACTAGTTTAGTGCAAATTAATGTAGTGGGTATTTTTCACTGTAGAGCACAAGTGTGTGATTTCTCTTAAGGTATCGAGAGGTACCTGAAAATCGAAGAGGTATTATCCAATGTAATATATAGAACATAGTGACTGGAAAGTTTTGCATTGAATAAATAATATTGCTCAATACTTAACATTTATTTATTTATTTGCCTTGGCGCATCTTTGAGCAGTTATATCAACACATCATATTCAATGTATTTTACAGGGTGATTATTACATTTGCCTACTCAACTTGTTAGTATTTACTTCTAAGCATGTTTTCTAGAAGCATGTGCTCTGTGAACTTCCTCTTGCAGTACTGAACATACTAGAAAGAGATTAAGAAAGAAGCAATGCTGTCACAGGAACCTTTTCTGAAATAAATTTAATTTGCTACTGTCAGCTTCTAGATCAGTGGTATCTCCTAAAAATGAGAGGTTTTTAGCTCTCTTAAAGGTGATAGAAGTAAGGCTTTTTTGGTCTCTCTGCTGCTTGGTTTCTTTTTTTTTTTTTTTTTACAGTATTTCCTAGATTTTTTGGAGTGATTGTCAGCTGTCTGTATGTGGAGTTCTTATGCACAGTTATCACAGAATTATTTTTTTTTCCTAGTAATTGTTTTGATGTTATCAATGAGATTTTGTTCAACAGAGTTCTAAGAATTCATTTCCAGTTTGAGAATATTACGCCTTGCAGCTTATTTGGTTCTTCCCACTCTGTTGAGTAAACTTCTTGTATGCTTACACTAAAAAAAAAATCTGAAGGCTCAACCTCTCACTCGGAAGCAAAGCTGTTGAAGGATTCTCAAATAGCTTCATCTGTGAAGTAGAAAAGCAAGGTAATAAATAGGTGTTTGATCCTTCACCGTTGACCTGGTTGGTCTTGAGGAAGACGGCTTCAACAGGAAAATTCTAACTTTTAGAGGCAGTAGGAGCACTGGCTGTAAGAGGTAGTCCTTCTCAGGTGGATTACCTCAGTCTGGAGGACTTCAGTTAATTTCAATCAAATCAGAATGTATATTGCAACATGGCTGTGATAGCTCTGAGCTCTGACAACAGAAATAGATGGAATTGTGCTTGAGGGATGTCATCTCTTGGTTTTCCTCATCCATTTACCGATGGTACTTTGTGGTAACAGAGAGAAATGCATGTCTCTGCTTTCTACACTTCAAAGGCCAGGCTGAGAATTTGAGTTTAAATGGTCAGTGAAAGTAATGTAGTACTCAAATGCTGCGTAGTGGTCCTTCTCTTCCTTCTTATGGACAGTTACCTGAAGTGGAATGGCACAGAAAACAAAGGAGCACTTTAACACCAAAAAAAGAATGCTAGCAAAAGCTTATCAGGATATTTATAACATAAAATGAATTAGGTATTTTTTCCAATTTTTATTCACTTGTCATATCAGTCAAATTTATCACTTTTTTTCTAGTTAAATTTTGATACTTCCAGAACTTTATCTGAGTGATTACTAATTTTGTTTACTGATGTAGACATCTGGACTAAAGTAATTAAATCAATCCAAGAGTTTTCATTATGTCTTTATAG
Seq C2 exon
GTAATGATACAATCTATTGGACAGACATGGGTTTCAACAAAATTAGCAGATCTAAACGGGACCAAACATGGAAAGAAGATGTTGTTACAAATGGCTTGGGAAGAGTTGAAGGCATTGCAGTGGATTGGATTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000012407:ENSGALT00000020272:34
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:
NO
A:
NA
C2:
PF0005812=Ldl_recept_b=WD(100=89.1),PF0005812=Ldl_recept_b=PU(0.1=0.0)
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:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]