BtaINT0086897 @ bosTau6
Intron Retention
Gene
ENSBTAG00000004555 | LRP2
Description
low density lipoprotein receptor-related protein 2 [Source:HGNC Symbol;Acc:HGNC:6694]
Coordinates
chr2:26996018-26997561:+
Coord C1 exon
chr2:26996018-26996275
Coord A exon
chr2:26996276-26997352
Coord C2 exon
chr2:26997353-26997561
Length
1077 bp
Sequences
Splice sites
5' ss Seq
AAAGTGAGC
5' ss Score
5.89
3' ss Seq
TGTATTTTCTTCCTGGACAGAAT
3' ss Score
7.83
Exon sequences
Seq C1 exon
ACCAGAATAGCTGCTCAGATTCCAATGGTGGTTGTACTCACCAGTGTATTCAAGGGCCTTATGGGGCCCAATGCCAGTGTCCATTGGGATATCTGCTTGGCAATGACTCTAAGACCTGCGAAGACATAGATGAATGTCGTACTCCAGGCTTTTGTAGCCAGTACTGTTACAACATGAGAGGTTCTTTCCGGTGCTGGTGTGATTCAGAATACACGCTAGATGCTGATCGGAGGACTTGTAAAGCTACAGGTAATGAAA
Seq A exon
GTGAGCTAACTCCAGCTAGTTTAACAGGCATACTCCACACACCATCTTCGTATAATGCCTGATGAATTAAATTCAACCAGTATTAATTCTGGGCTTCCCAGAGGGTGCAGTGGTAAAGAATCTGCCTGCCAGTGCAGGTAGATGTAAGAAACGTAGGTTCAATACCTGACTCAGGAAGATCCCCTGGAATTGGAAATGGCAACCCACTCCAGTATTCTTGTCTGGCAAATTCCATGGGCAGAGGAGCCTGGCGGGTTACAGTCCATGGGGTGGCAAAGAGTTGGACACGACTGAACACAGCACACACATAGTATTAATTAAGTTTCTCTGACATGAAAGTGTTTGTACTATGTGTTAGGGTATCGATGTGGCTGCTTTAAATAATAATAATAAATAAATAATACTAAAACCAAAGAGGCAGTTTCTTCTTTTCAGGTAGGAGTCTGGAGGGTAGAGGGTTCGGGGGTAAAAGCTGGTGTGCCTTCCGTCCAGGGATCCAGTGATCTTGCTCCAGAGTTTGCCAGCTCCCAGGAAGTATGAAAGGGGTGAGCAGCTTCCTTTTAAGGATGATCCCTGGAATTTGACACATCATTTGTGTTTGCATTTTATTGATGGAAACTTAGTTATATAGTCTCTCCAAATTGAAATGGAAATGGAGAAACGCCTCTAGCTCTTAGGCCCTGTGCTGTGCTAAAAGTTGGCATAATTTAATACTAAAAAGGAAGAAGAGAGAGGACATGGGAATGATTAGAAATCTCTGCCACAGCTGAATGCGGAGTACAAAATAAGCAAGTACAAAAGTAACTATAGAAACAGGAAGAATGCAAGAATAGTTCACTCCAGGTTGATAGATAAACACTGAAGTGTAATTCAAGGATGAAAGACATTTTGAAAGCTTACTTTCGGTACTTGTGAAAATCAGCTATTAAGGTAACATCATTCTTATAGGAGTTTTTGTTTGTTTTTCCCCATTACTCTAGTTTGGAATGGCATCTTCTTTCTGTTATCAAAGGTATTACATCAAATATTGTTGTTTCTCCCATAATCATTGACACTTTGTATTTTCTTCCTGGACAG
Seq C2 exon
AATCTGAAACTCTGTTACTGGTGGCGAGTCAGAGCCAGCTTGTTGCTGGCAATATGACCCAGAATGGGTACTTTGTCTACCCAGTTATCCAACATGGTTCTCACATTGTGGCTGTTGATTTTGATTCAGTCAGTGGTCGTATCTTTTGGTCTGATGGAACTCAGGGTAAAATCTGGAGTGCGTTTCAAAATGGAACAGATAAAAAACTA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000004555:ENSBTAT00000005988:25
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=PD(9.1=4.6),PF146701=FXa_inhibition=WD(100=41.4),PF0764510=EGF_CA=WD(100=44.8)
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:
CAATGCCAGTGTCCATTGGGA
R:
ACCCTGAGTTCCATCAGACCA
Band lengths:
357-1434
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]