BtaINT0086944 @ bosTau6
Intron Retention
Gene
ENSBTAG00000004555 | LRP2
Description
low density lipoprotein receptor-related protein 2 [Source:HGNC Symbol;Acc:HGNC:6694]
Coordinates
chr2:26955832-26957556:+
Coord C1 exon
chr2:26955832-26955984
Coord A exon
chr2:26955985-26957436
Coord C2 exon
chr2:26957437-26957556
Length
1452 bp
Sequences
Splice sites
5' ss Seq
GTGGTGAGT
5' ss Score
8.95
3' ss Seq
AAGTCTTTTTCTCTGTTTAGATG
3' ss Score
7.58
Exon sequences
Seq C1 exon
AAAGCAAAATTAATCGTACCTTTGAATGTTACCCAAATGAATGGGCCTGTCCAAAGTCTGGAAAATGCATCCCAATTTCTAAAGTTTGTGATGGGACTTTAGATTGTCCAGGAGGAGAAGACGAAAGCAATATCACTGCAGGACAACAGTGTG
Seq A exon
GTGAGTATGGAAATTTGTCTGGACATCTTTCAGGTAATGGTGTCTCTGTTTTTCTATAACAGATTGCCATAGATAGAGAGTATCAAGTGGTGTTTGCAGAATGAGCGATTCCAAGACTTAGTAGCTCTAACCAACAAACATTTGTTATTTCTCACAGTCCTGTGGGTTGGCTACATTATTCTTTTGGCCTGAACCAGCTCACTCACATCTCAGGATGCTCCAGCAAAAGCATGGCTAGTCCAGGCGTGTTTGCCTGGTCATGGAAAGGGCAAACCCCAGTGAACAAGCTCTTCTAAGCCTCGACTTATGTCATGTTTCCTAAGTGTTCTATTGGCCAAAAGAAGTCACACTGACCCCAGATTTAATGGACTGAAGCAATAGACTCCATTTCTTGATGGGAGGAGTTTATAAATATCTGTGACTCTTCCTCCCCCAACCCGCTGCATCTCCTTCCCAGGAAGAATGGTTTTAATGGTAATTGTGATGACTCTAAAAGTATTCTGGAGATTTGTGATGACTCTAGAAGTATTCTGGAGATTTTATTCCCTGGATTACACCTGTGGAAAAAGTGTTGCTAGCTTTACTCAAAAACTTCTGGTTTCAGGGATCTATACTTGGAGTTACTCACTGCCCTACCCCGACTCCACAGCCGTAGAATATTTTCCCACTATAAGCCATCACTTCTGTGGATAGCCGGCTGTCCTGTAGGAAAATGCAATTCATGGCCTTGATTTCTCTCTGAATTATCTTGTAGTTGCCTAACAGTGACCATGAACTGTAACCCTAAAGTTTTGGTGATTTCTTTTCCATGAAAAAAAGAGGCTTCTATGGCTTCTTTTATATCCACCACCCCCCCCCCCATTTCTTTGGAAGCCCCTTTAAACAGTCCTAGTGCGAAAGTTAGAAAACAAAAATTAGTTGAAGCTAGGTTGGATTCGGAGAAGGCAGTGGCACCCCACTCCAGTACTCTTGCCTGGAAAATCCCAGGACGGGGGAGCCTGGTGGACTGCCATCTATGGGGTAGCACAGAGTCGGACATGACTGAAGCGACTTAGCAGCAGCTTGGATTAATTAGCTTTTTAAGTTAAAAGTTTAGTGTTTAGTGTTCAGTGGCTTGGAAATTCTTAGGAATATCCTTCTATTCTTTCTAGATAGAAGAAATAGATATCTAGATAGATATCTTTCTATTAGATAGCCTAATATCTTTCTAGACACAAAGATAGACTTTTGACCAGATTTTTTTCATGAACAGCACTTCTGATGCCTTGTGCTTGCACTTAGTTATAATGAATTTTTAAAAATATGTGCTGAGTTTTTATTGCATCATACTGCAGGCTTGAATGGTGTTACTGCATACTTACTGAGCTTTTACTTTGGAAAGTTCTTACTTCTTATAAATCAGCTTTGTCCGGAGATCACCTTTCATTTCACAAAGTCTTTTTCTCTGTTTAG
Seq C2 exon
ATGTGAATCTGTGTCCGTCCTTGGGATGTGAATACCAATGCCACAGGTCACCAGGTGGAGGGATGTGTTACTGCCCCTCAGGTTTTATTGTCAACCAAAATAGAACCAATAACTGCGTCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000004555:ENSBTAT00000005988:7
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=84.6)
A:
NA
C2:
NO
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:
TTAATCGTACCTTTGAATGTTACCCA
R:
ACGCAGTTATTGGTTCTATTTTGGT
Band lengths:
262-1714
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]