BtaINT0086906 @ bosTau6
Intron Retention
Gene
ENSBTAG00000004555 | LRP2
Description
low density lipoprotein receptor-related protein 2 [Source:HGNC Symbol;Acc:HGNC:6694]
Coordinates
chr2:27011780-27014363:+
Coord C1 exon
chr2:27011780-27011889
Coord A exon
chr2:27011890-27014185
Coord C2 exon
chr2:27014186-27014363
Length
2296 bp
Sequences
Splice sites
5' ss Seq
TGGGTGAGT
5' ss Score
8.73
3' ss Seq
TTTATTTTTCATGGTTGTAGGAA
3' ss Score
8.12
Exon sequences
Seq C1 exon
GTTATGACACTTCAAGGAGATGTCAGTTACAGGAAAACCCTGATTGCCAATGATGGGACGAGTCTTGGAGTTGGTTTGCCAGTTGGCATAACTATCGATCCTATTAATGG
Seq A exon
GTGAGTGTTCATTCAGAAATAGCATATGTCTTCTATACAGCAGCACTTTGGTTAGTATTATGATCTGATAAAATAGAAGATTTCAAACATAGGATCTCTTCTGATTTCATATGCCAGCATTTGAAAAATATAGATCTCAGGGCTTCTCTGGTAGCTCAGTGGTAAAGAATCCATCTGCCGGTGTGGGAGATGTGGGTTTGACCCCTGATCTGGGAGGATCCCACGTGCCACAGAGCAGCTACACCTGTGTGCCACAATAGAGCCTGTGCCCTAGAGCCAGGGAGCCGCAACTACACAAGCCTGCATGCCCTAGAGCCTGTACTCTGCAACAAGAGAAACCACTGCAATGAGAAGCCTGTATACCACGACTTGAGAGTAGCCCCTGCTCACCCCAACTATAGTAAAGCTCTCGTGCAGCAAAGCCCCAGCACGGCCAAAAAAAAAAAGAAAGAAATTATATAAAAAAGAAGGAGAAGGAAACGGCAGTCCACTCCAGTATTCTTGCCTGGGGGATCCCATGGACAGAGGAACCTGGCTGGCTACAGGTCATGGGGTTGCAAGAGTCGGATACGACTTGGTGACTAAACCACCACCACCATATAAAAAAGAAAATATAGATCTCAGTATGAAAGAAATAGCTGTTAAGTTATATGTGATATGTATTTTTCAAATTAGTAGCCCTGAATTTCAAACAGGCAAGAATTTCAGGCATTTTAAAATAGAGTGAACAATTATATATTTTGACTTTGAATGAATGTGGAAAGCTTGAAATAGACCTTGAAGGGTGAGAAGACCACCAGTAGATGGAGGATGGCTTGCAGCTGAGAAGTGGTACTTGAGGCCAAAGAGCAGTGGAGGCCCAGAAGCATGGTGGTACTTAGCATGGTTGTGTAGAGGGCTGGAACCAGAGACTTCGAGTAAGGGACAGTTGACTAGTTGGGAGAGATACAGCAGCTAAAGCCACTTGGGGATGAATCAGGGAGGGGCTTTAATGTCATGCTAAGGAGTTGTACTGTATTTTTTTTTTTTTTTTTGAGAAATAAGGAGCCAGCAGGAAATTTGGAGGAAAGGAATGATAGAACCTAATCTGTATTTTAGAAAGATTAATCAGGATTGGAGTGGCAACAAATCTATCATTCTGTCCAGAAAGATTAATCAGGATTGGAGTGGCAAGAGTCAGGGGAAAAAGAAAATGTTTAGCTAGTGATGAGAGTTCTTAGCTAAGGTTAAGTAGCTTAAATTTTTAGTGAACTCAGAATTTGTAAGAGTTTTGTGACTTTGTCCAGAAAACTTTTGGCAACCTGGAATGGGAGAGGAGAGAGGATAATGACAGGAACTTACGGTGAGCAGTTAGCAAGTTAAGGAGATCATGAGAATAAATAAGAGTACTGTTAAAACAGTTAAAATGGTATGAGGTCCAGGCATAGAGGGCCTGAAGGTTTGAGAGCTCAGACAAATTTTAAGGGCAGAGGATAGGTTCAATGGAAGAAGTAAAATAGGAGAAAGGAAGAGATGGAAGAGTTTGGTTGAATTTCAGAGTTTGAGAACTTAGAGGTAAAGAAGTTTAGAATTGAAGAGTAGGTTCATGGGAAGGGTATATTGGATTGATGGTGAAAGAAAGATGCCAGTAAAGATGATTGGAATTAAGGCTTTGCGGAATCGTAGAAGAGTTTGAGAAGGCTGTCTGGTGAAGCAGGAGGTGAGTTTGAAAGGAATGAAAACTTTGACTCATGTCTAGAAGTTAAGTCCTCAATGGAAATGGAAAGCAACCTTCACATATTTTAATGAAATTGGTAATTCTGTGTGCTGATTAGGATTCATGTGTATACACTGCATTTTCCATCATGAAAATTGGAATAGCTTATCTTGTGGTAATTGATTCGGAAAAGAAATAAAGAAGGCTGAGAAGTGATCAGGGAGGTACTTGAATACTTTTGCATTAGCTCTTTCTTTTCTGGTGTGCTTAGCAGTATGTGAGTCTGGAATTGACTGTTGATACAGGCTTTTTAGTCCATGAACGTCCTGTGTGACCAAGCTAAAGGACTGTCCACCAGTGGAAAATGGTATCCTGTGTCAGATTTCATTTTAAGTGGCCTCTCTCCCAGTAATAACTGGGAAGTATACAGACATTAGAAAACACTAGTTATGGACTCCTCCACGCTATATGTAACAGGATATTGACAATTTCAGACTTCCCCCATTGAATGGTGCGTATCCTGAGGACAAAAAATTTGTTTTTCATTTAAATACATAGTGAAAATGTTTCACTCAATACCTTTATTTTTCATGGTTGTAG
Seq C2 exon
GAAACTGTACTGGTCAGACCGAGGAACCAACAGTGGCCTTCCCCCCAAGATTGCCAGCGCTAACATGGATGGCAAATCTCCAAGAACTCTCTTTACTGGGAGCCTTGAAAATGTGGCATTTATCACCCTTGATATTGAGGAGCAGAAACTCTACTGGGCAGTCAGCAGCACGGGAGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000004555:ENSBTAT00000005988:33
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=0.100
Domain overlap (PFAM):
C1:
PF0005812=Ldl_recept_b=PD(68.8=89.2),PF0005812=Ldl_recept_b=PU(0.1=0.0)
A:
NA
C2:
PF0005812=Ldl_recept_b=WD(100=76.7),PF0005812=Ldl_recept_b=PU(28.2=18.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
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]