BtaINT0086943 @ bosTau6
Intron Retention
Gene
ENSBTAG00000004555 | LRP2
Description
low density lipoprotein receptor-related protein 2 [Source:HGNC Symbol;Acc:HGNC:6694]
Coordinates
chr2:27064967-27066132:+
Coord C1 exon
chr2:27064967-27065187
Coord A exon
chr2:27065188-27065955
Coord C2 exon
chr2:27065956-27066132
Length
768 bp
Sequences
Splice sites
5' ss Seq
CAGGTTAGA
5' ss Score
5.94
3' ss Seq
TTTTCCCTGTGGGTGAACAGCGG
3' ss Score
5.72
Exon sequences
Seq C1 exon
GTTTATGTACTGGACTGACTGGGGCGAAAATCCTAAAATCGAGTCCGCTTGGATGGATGGGCAGCGTCGGAAAGTCTTGGTTCAGGAGGACCTTGGTTGGCCAACAGGCCTCTGTATAGATTATATGAATGGTGACCGGATCTACTGGAGTGACCTCAAGGACAACATTGTCGAAACCATCAAATATGATGGAACCGATAGGAGAATTGTGGTAACTTCAG
Seq A exon
GTTAGAAATTTCACTTTCAATTTCCTATATTAATTAATGTGTTTCCAGTCTCTTTGCCCCCCTTTTCCCAAGAAGTAATCCTAATCTTAGGAGACAGTTTATATAGTTTCTTATATACTTTCCATTCTACCCAGCTCCCATCTGCTGATTCAAATGCAAATGAACCTGTTAGGAGTTCTTTCTTGTATCATAAAAAAACCTGCTCTCGGCATCAGATGTTAAAATAACCATTTCTCATTAGGTTGCCCTGATAGAGGTGAGGATCCTGTGTTACAGTGGTTATATCCAGGTCTAATTCCTTCTAGATACATTCATTTTTAACATGCTAAATTGCCTTTTATGCAAGACTGGAAACATTTAGGAGAGTAGCATTTTGTTTTCTTGCCTAAATTCTACAGACCTGAAAAATCCAGCACGTATCAAGTTTTCCTGATAAGTGGTATCTTATGTCTAAGGAAAAAAAATTCTCTGCCATACAACTTGTTTTCTAAAAGTAAAATAAAATCAGCAACTTGAAAGTGAGCAAGTCCCCTATAATTGGTGTCAGCCTGTAGGCATTCATCCAATTTAATTTCTGTTATCTTGATCTCCTGGCGTGGCACACTTTCTTGGCCGTGTGTACAGAGAATCTACGGATGTTGCTGGAATTTTAAGGTGTTGCCTTAGAGGTTGATCTGAGCAGCTTGACTTCCAGCCTAGAAGTGGAGCTTGGGTATCTTCTTTTCAATAACCTTGTTTTGTTTTTGCTTTTTCCCTGTGGGTGAACAG
Seq C2 exon
CGGTGAACCCTTATAGTCTGGACATCTTTGAGAGCCAGTTATACTGGACATCTAAGGATAAGGGAGAAGTGTGGATCCAAGATAAATTTGGGCGAAACAAGAAAGAGAAATTGCTGACAGTGAACCCTTGGCTTACTCAAGTTCGAGTCTTCCATCAACGGAAATATAATCATTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000004555:ENSBTAT00000005988:69
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:
PF0005812=Ldl_recept_b=WD(100=56.0),PF0005812=Ldl_recept_b=PU(76.3=38.7)
A:
NA
C2:
PF0005812=Ldl_recept_b=PD(21.1=13.3)
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:
ATGTACTGGACTGACTGGGGC
R:
CCAAGGGTTCACTGTCAGCAA
Band lengths:
348-1116
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]