RnoINT0105307 @ rn6
Intron Retention
Gene
ENSRNOG00000056219 | Olr1
Description
oxidized low density lipoprotein receptor 1 [Source:RGD Symbol;Acc:620515]
Coordinates
chr4:163257646-163261958:-
Coord C1 exon
chr4:163261774-163261958
Coord A exon
chr4:163257748-163261773
Coord C2 exon
chr4:163257646-163257747
Length
4026 bp
Sequences
Splice sites
5' ss Seq
AAGGTAACA
5' ss Score
8.92
3' ss Seq
CTGATTCTCCTTTCCTGCAGGGC
3' ss Score
11.56
Exon sequences
Seq C1 exon
CTCTGCTAGATAAGAGCAGCTATTTAAACTGCATCAGAAGCTCGAGCACTGGCAGTTGGCTGACTGAGGTCCTCTACTGTTTCAGTTTCCCATTCTTGGCATGAATTTGGAAATGGCTTTTGATGACAAGATGAAGCCTGTGAATGGCCAGCCTGATCAGAAGTCATGTGGCAAGAAGCCTAAAG
Seq A exon
GTAACAGGGGTGGGTGGATGCTTATAGAGGCAGAATACCAGGCTTAGCTCAGAAATATAAATTAAATGTACTGATGAATGAGGTTAGAAGGTAAAGACATTCAAATATCAGAAGATAGAAGAGGGTAACGCCATTAATTTAGAAGGAGAGCAAGGAGGATTCAAGATAATAACTAGCTGGCACTACATCTTTAGTATAAGCTGTTCTCCGTGCTATATGGCTTTAAGTTAATGCCTTCTCCAAATGGCAGTACTCATATCATCTGCTGTCTGTAGAAAGCGAACTCAGAATCTGGAGGATTAATAAAGTCACTCTGTTTCCTTGGACAAGACAGAGTAGAGCCAAAATCATACCAGATTCCCACATATGAAGAATCCAGTCTATAAAAGAATGGCAGAAAATGCATCCATTCAGAGTACACAATAACTGATTTTGTGTGTTGCTGAAGTACTGCAAAAATGGGGAGTGTTTTGTTAGTTATCTAATGCAGATTTGGTATATTCAGTACGGCCAAATATACATTAGACTCTTTGTCCATTGTTTGCTTTGAAAAATTGTAGCTTGTACTTCACTATTACAGTAAACTTAATTACTTATGCTGAATAGATAACTCGATTCTGTAGAAAACTACAGGTAAAACATCTATTATTTTATAAAATCGAGAGAAAAAGGCCAGGTAGGTGCACACCTTTAAGCCCAGCACTTGGGAGGCAGAGGCAGGTCACCTGCTCTACAGGGTGAGCTTTAGGTCATCCAGGAATACACAGAGCAACCCTGACTCAGAAACAAAACCAAAAAAAAAAAAAAAAAAGGAACAAATTGTAAGAAGAGGAAGAAAGGCATAGTGTGTCTGTAAATAAGCCTGAAATCTCTCAGTGGGTAAGATAAGGCCGAGTGTGGTGTGATTTAATGTCTGAGTGACTGAACTAGCTCAGAGTCAGGACAGTGCTGGAGCTTGGTAGTAGACCCAGCAGCAGTGGAGCTAGCTTAGTGTGAGAAAGTGCTGGTGTTTAGTAGTAGATGTAGGAGCTAGTACCACGTGTGAATTTGCTCAACCACTCATTCATTATTTGTGCAGTAAATATTGTTTTCTAACCTGACTTTTACCATAAATACAACTAGTTCTTCTTTAGGAGCCCTGGTTAGACTATTTACTGTGGTATAAGCTATATACTGAAGTTAGTGTACCAATCTTTACTGATTGACTAAACGTTGTTTTCTAACTAGAAAGCCAGTAGTCTCCTCCTCCCGCTGAGATGGGATGAAGGTGCCTTTTGATAATAGGAGCTTTGCGTCTCCCTTTCCCACGGTGGCTCAGGCAATTGGTGTTTTCATTCAAGAGTTGTGGACATACAATGTGTGATGAATACTGGGGTGGAGGGGAAGGATTTTTACGCACAGACGCCTGACGCCAGCTGCCACGCTAAGGCAGCTGCTTGTAAGAGATGTTCCTGTCTTCTATTACCTGTCGGCTCATGACATGAGCAGAGACAGAAATCCTTCAGCCGGAGAGTGAGCTGTCTTTCTCCCCATCAGAATTTCTCTCTGTTTTATATCATCTGTGGATTCTAACACAAACTAACACAGGAGAACGCAGAATATGTTTGACCATTGGCCAGCTTGGGCCCTTACTGCATTCACTCTGAAAGCTTGGTAGTCTAATAGTCCAAGCATTTCGGCTGATGAGCATTGGATTAAAGGACTACATTCAGAGCCAAAGGTAGTACTGCTTGCCTGATATCCCAACACTGCGGAGGCTGAGGCAAGAGGACTTTCTTCCAGTCTAAGGCCAGCCTGGGCTATCTGGTGAATTCCAGACATGCCTGGATTAGAAAGTAAACATCATTTTGAGCAAGAACAGCATAAAACCCAAAGACCTACATTTTAAGCTTTTCTTACATGTGTGTTATCGAGTTAGTGAAACTGAAACTTTCGGTTCCTTCTTTAGAGAGAATAACATCAGTCTTCTGTTTATCTTAAACCAGATGCATTGTGTGTGATGTTTTCCTCTCGGATCTGTAATGGCTGTGGTAATTCAATGCTGGGACACGTCACTGGACAATCACGTGTCTGAGAGCTGCATGACTTGTTTTTGTAAATAAGGCAGCGTTTCCTCTGAGGATAATAGGCCACCCCTAATGTAAGTGTAAGGCAGCTATTACTAGAAGAAAATTGTTTATCAAGGTTTTATTTCTAATTTCCTTTGGTCAATAACTCCAGTTCTAGGAAGCAATTTTAGAACTAAGAATTGAATAAGATATTAGGCATAGAATTTCATGAGGAAATCTCAGATCACTGACTAAAATGTTTTGTTTAACATCTGACATTTTTTTTTTAATGTGATGTTACTTATGAGTACCTGTGTAAAGCTAAAATAACTTATCAGGGATTGTAGCCCCCATTTTGTTTCTTAATACATATTGGGGATTTCTACCTCATTTATGCCTGTTTTGTTCCCAAGAAAATGATGAGGAAACACAGTAATTTATTAAGCTGTAGGCACTATGCTGGGCAGGTTCTGAGGTATTCTAATCTTTCCATGCTGTTAAAACCTACCTGAATACTCCTTTTAGTTGTGGTTTGTCCTGGAGTTATCTGTATTTTCATGCTAATTCCACTGCCCCCAGGACAGCTGCCTAGTCACTTACTCAGGACTTAGGTGACTTCACCAGAACCTTCTCCCCATTGAATTTGTAAAATACAGGTGAGGGGCAGGTACAGAATAGAAGGAGGCCTGTCATTGGATGAGAAGGAAGGATGGGCGGGAGAGAAGTTTGAAGGAAGAGGAGGAGATTGGAAAGGAAAAGAGGAAGGGACAGGAGGGAGAGGGAGAGAAGCCGTGGCAGGAAAATATGGCGGGTGACGTTAAGATTCCACGCTGTACCTTTACAGGTTGTTAAAAATGTTTTTAAAGGATGGATATGGATTGGGCTTTGTATGTCTTGTTTAGGTGGGCAATTATATCTTATCAACTGGGCCAAAGGTTATTGTGTTGTATGTTCTTTCATGTGTAGATTTAAGTGTAATGGAGTGTGGGGCGGCTGGTCTGGGCCACCACAGAGTTGGGATGTATGTTTCTGGCATGGACACCTGCCTTGGGAACTAGATAGGTAGAGAGATTGCTGACAGGCTCAGAGAGAGGCCTTCGACCGTGTGATATGGGATGAAGCAAAGCGTTTGAGAGGCTTTGCTGACTAAGATTAAGTTATCTAGGAGATATCTTGGGGCACTGCAGTGCCAGACCTAGCAAGATAAAAGACAGCGTTTTTATTTCATTTTTTTTTTATATTTTTACAACAACACCATTCCTTGCCAAATTAGTGTCTTTGTGCATTTTCTGTTGTAGTTGTCTGTCCTCAGAGCAAACTTCTCTTGGCCATGTGCTCCTGGTCCACCCTGCCTAACAGCTACATTTTTCTCCTCCCTCATCTTCTTCCTTCTCCTCATAGTTCCTACCTGAGATCACCCCTACTTATCTCTAGTCCAACCTTTCTCTCTCTCCTGCCCAATGGCAGGTTACAGTCTTTTATTATCAGATCAGAGATTATTGGGGGAGCATTCTTTACCACACATTGGTCAATATAATACCCATGTCCAGACTGCAGCCTGGTCTTGGGGCACAGAACTCAGCATCTGAATACAAGGTGCATAAGATTAACCCCAACCCATGTGTATGTAAACATCTCTCTTTCTGCATAGTAGATAGAGTTATTAGGCTGTGTTGAGAGGTCTTAGAAGAGCATTGTGAACAGGTGAACAGATGAAGGACAAGCTTCAGGATGAAGTATTTAGGGTCTATACCTCATACTGAATCCCAGCTGTGATTTTTTCCCCATGTGAGTAATTTACTTCAGTTCCATATAATCATCCATTGTTTCACCAGCACAGGAGCAGAGCCAGTGAGACTGGAGGCAGGGTGTTAAGAGATGCAGATCACAAAGCAAGCCCAGACACAGACAGTATCCAGAGTCTGGCTTGACAACCTACATGTGCCTTTTCCAATTTTCTGATTCTCCTTTCCTGCAG
Seq C2 exon
GGCTGCATTTGCTTTCTTCCACATGGTGGTGCCCTGCTGCTGTGACTCTGGCCATCCTTTGCCTAGTGTTATCAGTGACCCTTATTGTACAGCAGACACAGT
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000056219:ENSRNOT00000086390:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.552 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]