BtaINT0086896 @ bosTau6
Intron Retention
Gene
ENSBTAG00000004555 | LRP2
Description
low density lipoprotein receptor-related protein 2 [Source:HGNC Symbol;Acc:HGNC:6694]
Coordinates
chr2:26994491-26996275:+
Coord C1 exon
chr2:26994491-26994868
Coord A exon
chr2:26994869-26996017
Coord C2 exon
chr2:26996018-26996275
Length
1149 bp
Sequences
Splice sites
5' ss Seq
GCAGTAAGT
5' ss Score
9.07
3' ss Seq
TTTCTTTTTCTTTATTCTAGACC
3' ss Score
11.07
Exon sequences
Seq C1 exon
CAACCAGGCCTCCTGGTATGTGCCACCAAGATGAATTCCAGTGCCAAGAAGATGGGATCTGCATTCCGAAGACCTGGGAGTGTGATGGGCATGAGGACTGCCTCCAGGGATCTGATGAGCACAATGGCTGTCCCCCCAAAACCTGCCATCCTTCTCATTTCGTCTGTCAGAATGGAAACTGCATCTATAGAAATTGGCTCTGTGATGGGGACAATGATTGCGGAGACATGAGCGATGAGAAGGACTGCCCTACTCAGCCTTTTCAGTGTCCCAGTTGGCAGTGGCAATGCCCCGGCCATAGCATCTGTGTGAATCTGAGTGCAGTGTGTGATGGTGTCTCTGACTGCCCCGGTGGGACAGATGAGTCCCCACTTTGCA
Seq A exon
GTAAGTCTCCTGACCACAGTGTACTGGCCATGAACTCATCCTGAGCAGGGGCCAGCTGCGTGTCGTCATTGTCACAATCACCATGTAGTTGTTGAGGAAGGAATCTCAGTTCTCTGAATTTCAACCTGTGTAGGGATAGCCCTCATGGAATTCAAATAAATCATCACTGGGTAGTATTTATCATTTAATCCTTTGCACCCGGTTCTGTGTTTTTACTTCATTAGATCATCAAATTAAATTTGGTTCTGTTGGATAATGCGCTCATAAGTTTTTCTAACTTTCATATTTCCTAATTTCAATCAGAACTTGCCACAAAATGAATAAAGTCCAGGGATTTGTGTTTGCTGTGATTAAAATCCTGTGATTGGCATATCATCCTAATTACTGTCCTTTCTTTCTTTGCTCTTTAATCGATGCTCACTCTCAGATGAACCCTAGCCAGGTATGACTGCAAAGTATTTTAGGTTCTTATGATTTTATTTGCATTGCATTTGTGCTGAAAATGTCCTAATCATTTAGACTTACTTCCCCTTCTGGTACATGTTTCATACCATGACTCTTATAAATAAGAATACATATGGAAATAGAGGATATTTGCATCTACAGGCAGATAACTATCTTGGGTGCCTCGGGCATAGTCATTTTAGCCCTGAAAGTAAGGATGATCGTATGTTAGTTTCTCTATGCCCTCTAGTCTTTCAGTTCTCCTTCCCCTTTGTAAACCTTTTAGCTCTGTTCTTCAGTGTCAAAGTCTCATCTTCCATATCTGTGTAGGTATAAGAATGAAAGAAAACAAATGGAAAGTAATTTAGGTCTCTTTGCAAGCTTTACCAATGACAGTTATGTTTCTTTATGTTTAGTTTGTATTTCCTCCACGTTTCTTTCATTGCACTAAATGGAGTTATATTAGAAGGTTGTAGTGAAGAAAGTGGTCCAAGTCCAGTGGATGTGAAAGGTGGTAAATCCTTAGGCAAGTCAGAGCACTGGACAGCCTATGGACCTCATCCATGTGGATTCTGCTCATAGCTCAGACTTGGGTATTGTGTTGAGGGTGACGTGAGACTGTATGACATGTAATGTAACAGAGTGAACCAAAGAAGCAAAGATTGCTGACTTTTCCCCTTCGTGATTTCTTTTTCTTTATTCTAG
Seq C2 exon
ACCAGAATAGCTGCTCAGATTCCAATGGTGGTTGTACTCACCAGTGTATTCAAGGGCCTTATGGGGCCCAATGCCAGTGTCCATTGGGATATCTGCTTGGCAATGACTCTAAGACCTGCGAAGACATAGATGAATGTCGTACTCCAGGCTTTTGTAGCCAGTACTGTTACAACATGAGAGGTTCTTTCCGGTGCTGGTGTGATTCAGAATACACGCTAGATGCTGATCGGAGGACTTGTAAAGCTACAGGTAATGAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000004555:ENSBTAT00000005988:24
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=30.7),PF0005713=Ldl_recept_a=WD(100=29.1),PF0005713=Ldl_recept_a=PU(88.6=30.7)
A:
NA
C2:
PF0005713=Ldl_recept_a=PD(9.1=4.6),PF146701=FXa_inhibition=WD(100=41.4),PF0764510=EGF_CA=WD(100=44.8)
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:
TGATGAGCACAATGGCTGTCC
R:
TCCCAATGGACACTGGCATTG
Band lengths:
355-1504
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]