BtaINT0086904 @ bosTau6
Intron Retention
Gene
ENSBTAG00000004555 | LRP2
Description
low density lipoprotein receptor-related protein 2 [Source:HGNC Symbol;Acc:HGNC:6694]
Coordinates
chr2:27007043-27008075:+
Coord C1 exon
chr2:27007043-27007209
Coord A exon
chr2:27007210-27007931
Coord C2 exon
chr2:27007932-27008075
Length
722 bp
Sequences
Splice sites
5' ss Seq
CCAGTAAGT
5' ss Score
9.09
3' ss Seq
CTCCTCGTCTTTCTCACTAGGGT
3' ss Score
11.12
Exon sequences
Seq C1 exon
ATGATCAAGCATTCCTAATAGTTGTAAGAAACAGTATAATTTTTGGAATTTCCCTTAATCCTGACGTGAAGACCTTTGATGGGATGGTGCCCATATCAGGGATACGCAATGGTTATGATGTTGCAGTTGATTATTCAGAGCAGTTCATCTATTGGCTTGAAAATCCA
Seq A exon
GTAAGTTTCGAATAACATTCCAAGTATGTAGCTTGTTCTTGAAGAGCCTACCTTCACGGAGGCCTTCTTACATTTTTGCTTGCGGGGGTCGGGGTGGGAATGACCCAGACAGAAATTAGTTCAACGCTAAGCCTTTTTTAATTCAGTGAGGGATGTCAATGGGAAGTTGGCCTGGAGCAAAGACCCAATAATAAACACGTTTAAGCCCTTGGGTGCATTTATTCATTCATCAAGTATTAAGTGACTACTACTTTCCTGCAGTGAACTGGCTGCTTCCAACTGCAGAGTACATGCCAAGAGGAAGCAGTAACCAAGTTTGCTCTTGAGCTTTAATCTAGTGGAAGATATTAGACTAACATAAGAATGATCTTCAGTTAAGACCAAAGGCAATAATTCCCTAAGGGAATTTCAGGAAAACATCTGATGTGGCTGCTGTGGCCTTCACTCAGAATCTTTGTCTTTAGGAGAAAAGAGAACATTCCTCCAACTTCCTTCCCACTGGGACTCTTTCTTTACCTATTAGGGAAGAAACCTGTGAGAATGGGGAAGGGGCAGGGAGAACATGAATGATTCAGTGCTGCTGGCATTGGTGTTTTACCTAGTGAGCCCACCCAGTGGCCCTGGCATTTTGCATTTCTTCCATGCATGAAGTATCTTAAAGCAACTGCAGTGAAGAAGCTGTGGCCTTGAAACAGCTCACCACTCCTCGTCTTTCTCACTAG
Seq C2 exon
GGTGAAATTCACAGAGTGAAGACAGACGGAACCAACAGGACAGTGTTTGCTCCTCTGTCAAGTTTGGGGGCTTCTGCGAGCCTGGCCTTAGACTGGCTATCAAGAAACCTTTATTTTACTGATCACGTGACTCGATCAATTAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000004555:ENSBTAT00000005988:31
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=PU(27.1=27.1)
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:
TTTGGAATTTCCCTTAATCCTGACGT
R:
CTTAATTGATCGAGTCACGTGATCA
Band lengths:
270-992
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]