RnoINT0086481 @ rn6
Intron Retention
Gene
ENSRNOG00000025053 | Lrp1
Description
LDL receptor related protein 1 [Source:RGD Symbol;Acc:1307535]
Coordinates
chr7:70911953-70914018:-
Coord C1 exon
chr7:70913899-70914018
Coord A exon
chr7:70912082-70913898
Coord C2 exon
chr7:70911953-70912081
Length
1817 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGC
5' ss Score
9.6
3' ss Seq
GTCTTTTTCTCTCCGGACAGATT
3' ss Score
10.79
Exon sequences
Seq C1 exon
AGCTCCGTGTCAACTGTTCTCGAATGGGCTGTCAGCACCATTGCGTCCCTACGCCCAGTGGGCCCACATGCTACTGTAATAACAGCTTCCAGCTTCAGGCAGACGGCAAGACATGCAAAG
Seq A exon
GTGAGCATGACTGTGTATGTGGGCTATGAGCATGAGGAGGCTGGCTGTAAGGAGGGCTGGAGCAGGGCTGGGCTGGGGGAGGAAAAACAAAAACGGGGGTTCGAGGGGCAGTCCTCACATAGTGTGGCTACAAGCCCTAAGCACTGCTTCCAGCCTACCCTTAAAAATGCTTCCAGAAGGTGTAGCTTGCACATGAATTTTGTTGTCAAAAATTAAAACACTGGCTTGGTGGTACGGCTTGTACCTGTAGCTCCCATACTTGGAAAGCTGAGGTACAGGGATTGCTGGGAATTCCAGGCCAACCTGGGCTACAGTGAAACCCTTTTCTCAAAAAAAAAAAAAAAAAGACCAAGCAGATCAAAACAAATTCTGATATAGTTCCCCTCTCTCTGGAGGACAAACCTCCTAGCAGTGTGTGCTCCCCTTTTGCAGGCCCCCGTGTACACATACTCACCAAAAGTCTAATTGGAAGCAGTGCTTGTGCATGTGTTCTTTTTCCGTAAGTGATTCGGCACTGTGGGTATCACTTACAGTGTTTCTCTCGCTTCAGTACGTTCCAGGGATTTCCCCCCCCCCCCCATCATCCCTGGTAGCATGAAGAGATTTACCTCATTCATTAAAAAAACCACTGTGACGTGAAAGTATTACCACAGTTTACTTGGCCATTTTCCTATTTGATGAGTAAAATGTTCCCATTTTTTTTCTCTGTCTTGAACAATCCAAACTTTTCTGTTTTAATTTGTCTGTCCCAAGTCTGCACAAATTCTGCCTTCTTGGTGCAGCTACCCTGACCTCTAAATCATACTCTTGTGACCTGCCTTTCTCTGCCTTCATCCCCACCCCCCTTTTATGTGTACAAGTGTTTTACCTACATATATGTCTGTGCACCACAGGTATACCTAATGTCTGGAGATGGGGTTGGATCCCCTGGAACTAGTGTTAGGGGTGGTTGTGAGCCACCACGTGGGTGCTGGGACTAGAACCTGGGTCTTCTGCAAGAGCAACAGTGTTCTTAACCATTGAGTCATCCATCTAGCCTCTCTGTATTTTTGTAAGATTTATTTTATTTTTATAAATAAATGTATGAGTGTTTTGCCTTACAGGTATGTGTGGTACCACATGCATATTTGGTGGTTGAGGTCAGAAGAGGCATAGGATCCCCTGAAAGTGGCATTTTACATGGTTGTGAGTCACCATGTGGGTGCTGGGAACAGAATCTGGGTCCTCTGGAAGAGCTGTAAGTGTTCTTAACCATTGAGCCATCTCTGTAGCCCCTGGACTTTTTTTTTTTTTTCTCGGAGCTGGGGACCGAACCCAGGGCCTTGCACTTGCTAGGCAAGCGCTCTACCACTGAGCCAAATCCCCAACCCCTGGACTTTTATTTTTAATGAAGGTCTAGAGATCAAACCCAGGGCCTTGCACGTGTCAGGCAAGCTCCCTGCTGCTGACATACACTAGAGTCCTTCGTCTCCGTTATCTGGTCTTCTCTCACCTGAACTTTTCCTTTTATTTCTTTCATTATAACACTAGCCTTCCGTTTATCACCAGAATGCAAGTTTCATGAAGACAGTGATATAGTTCTGTTTTCAAATTCATCATTGTATCTTCCATACCTGCCCTAACCATTGTCCAAGAATTGTTTTCTGAGTGAATGAGTATCAGTGCACATGACTCAGTAAATTCCGAAAGTGTTTGCCAGGCAGCAATGTCTTTGCATGCTCTGAACTATAATCGATTCCGCCAGTCAGCTGGTGGTATCTCAGGGCACCCTCGCTACACTAGAATGACCATCTTCTCGTCTTTTTCTCTCCGGACAG
Seq C2 exon
ATTTTGACGAATGCTCTGTGTATGGCACTTGCAGCCAGCTTTGCACCAACACAGATGGCTCCTTCACATGTGGCTGTGTTGAAGGTTACCTGCTGCAACCGGACAACCGCTCATGCAAGGCCAAGAATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000025053:ENSRNOT00000031005:4
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:
PF146701=FXa_inhibition=WD(100=87.8)
A:
NA
C2:
PF146701=FXa_inhibition=WD(100=79.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCTCCGTGTCAACTGTTCTCG
R:
CATTCTTGGCCTTGCATGAGC
Band lengths:
248-2065
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]