RnoINT0105311 @ rn6
Intron Retention
Gene
ENSRNOG00000056219 | Olr1
Description
oxidized low density lipoprotein receptor 1 [Source:RGD Symbol;Acc:620515]
Coordinates
chr4:163244105-163248527:-
Coord C1 exon
chr4:163248390-163248527
Coord A exon
chr4:163244242-163248389
Coord C2 exon
chr4:163244105-163244241
Length
4148 bp
Sequences
Splice sites
5' ss Seq
CAGGTACAG
5' ss Score
8.68
3' ss Seq
TATATGCTAACACTTCCTAGGTC
3' ss Score
5.52
Exon sequences
Seq C1 exon
AGGAGTCCCAGAGAGAACTGAAGGAACAGATAGACACCCTCAGCTGGAAGCTAAACGAGAAATCCAAAGAGCAGGAGGAGCTTCTGCAGCAGAATCAGAATCTTCAAGAAGCCCTGCAGAGAGCTGCAAACTCTTCAG
Seq A exon
GTACAGGGCGGGCCTGGTGGGTATTCGGCCCAGTCTTATTGAGATTTAACAAAACCAGCACAGCACACATATGCCAAGTATTCAGAGTGCCCTACACAAGCTCTCTGTGACTGCCATTTCCACCCTAGCCCATGGGAATCCTAGTAATCATTGGAATTGAGTTGTTGGAGCTCTCCTCATGCCCATTAACTTTTCTGCCTTCTTTCTTTCAAATGCTAACTTTGGGGTTTGAGCTGAAGCACAGTCCTGTCCCATTGTCTCCTCTTGCCACAGATATGTTATTGCTTCTGTCTGAATGCATCTTAGTCACTGGCCTCCCTTTCATTGGGGTCTTCCTTTCATTGCAGTTCTTTAGCCCAGACCCTGTTTCCTAAATGAGGACGACATCTGTCTAAGTACAAGCAGTGGAGGTCAACTGACTAAAAACTTAGATGGATACTTCAGACTGAACAAACATAAGAGGTTAGGGAAGTGGGCTTATATAGGAAGTAAAATGGTTTCATCTCTCTCAAGGGATTAAGAATCTAGGGAGCAGAGGAAGAATAAAGTATGCTGACAACCTTTGTGCCATCAGAGATCGTTACTGCATTTTTACTACATTTCTGCAATATTGGTATTTTCTGCAGTGTAAGCAAAGAGGTGCATGCTTGTAAGTACAGAGTTAGGTGTGACGGAGTCTCTTGCTACCATGGCCCTTCTTAGGAAGTGCTCTAATGAAGATTCTATTGTGAGGATTATCAGTTGTCACTCAAAAGAGAACTTCTCCAACATCTTGTTTGTGAGGCTAACATTTTAAACATGCCTTTTTTTGGAAAAGGATTACATAGTGATAATATTGATTGACATTCCTTCACTGTGTAGACAAATTTTTAAGATTAGGGCAGATTTTAACAATAATGATGATGAGTGGTTAGATGTAGAGTTACTCAGTTTATAAGTCTTTTCAGGCTCAGAACGAAAGGGCATGAAATGCTGTGTCTTTTATCCCAACTGGAGATACAGCAGCAGGTAGGTTTCTGAGTTCAAGGCCAGCCTAATCTACATAGCAAGTTTTAGGTGTGGCTACAGGAAGAGATTAATTGAATAAATAAATAGATGTCTGTACGGTGTAAATGGAATTAAAATTTGCAAAAGTAAACATTCAGGTTTCGACAAATTGACCTTCAACTAGTGTCAAACATATATTTAGTTTCTCTAGCAGGGGGTGGAGGACTTTTCCATAAATTAAATGGATCCAATATTTCAAAACAATTTTTAAGGAAAGAAGGATTAAATATCAAAGATGGGAGTATTTACATACACAGGCAGCCAAAATGCCAGCCAACGGTTTGTTTCACAGACATAGTAGAAAAACAGTTTACATTTGTCACCTGAAAACAGTTTGGGATTCGTCTGTGTCATGACCATGAGAAGCCTTCTCTCAGAGATGCCAGAATTGAACAACAAGTCAGACACAGAGTATACATGTGCCCTTCTGGCAGATATATTGGTCTGGATTTACAGTCCTTTAAATGTTAGCTATGACCAATTAGTAGCAATACCAGATGCATGTTTTGATCATGTGGCTTCAAGAAAGGCCTCATAAAAATATCATAGCACTGAAATCCCATGTGGAAAGATGAGGTTTTTCTCAAATTTGAAGAAGGTTGTACCTGGCCTACTAACAGATCTGGTATGATTTACACGGAAGCAAAGGAGAAGCAGAGTCTACATAGGCTAGATTTCCTTTTTTACATTTAGCATCAGATTTGGTGGTCCCTTTTTAATCTCTATCTATGAATATAGATTGATGTAAATGGCAGGTTCCCTGTAGGCTCTTAAATCCTGAAACAACAAGTCCAGAGCCCAAAGAGGAATATTAACTCAATTAGTTCATCCACAAATACATTTGAGAGGAAGCGTCTTATAGTGGCTGTATTAGGTTCTGAGGAAGGAACAGAAGCAATGGAATGACTATATATTTAAAGGGCATTTATTGGTTTGGTTTACATAATATGCCTGGAGAATCCAACAATGCTTATCTCATACTGGATGGGTAGAGAATTTGGCAGTTGATCAACTAGTGAAGTTGGTTATCTGACTTGTCATTGTCTGGCACTGACTTTCTAGAATATCCTTGAAGAGCTACTGATCTTCAGTCTATTTTGGAAGCCAGGAGAGGTTGATTCTAATATCAGGGAAGGAATGCCACTATGGGATCGATCAACTTGCCTGTAGAGTGAATGTCCATTAGCACAAAGCAAAGTTCTCTTCTCCCTCCTTGTCTCTGTGTTGACACAGGAAGGGGATGCCCACATTTAGTTCTCCCAAGTTCAGATAATCTGATTAAGAAAATCTCTCACAGGCATGCTCAGAAGCCTGGCACCTAGTCCATTCCAGATGCAGATAAGTTGGCAACCAAGGTTTAGCAACAGACATTAAATACATATGCAGCATTAGGAACAAATTCCTGACTTCTTGATCTGTCAAATGAAGATGATTAATGGAGTCTGTCTCTGAGTTTTACATATACAAAGTATTTCGAACAGCTTGTGTACTTGGTAAATAATATTTGTATTCATTAATTTATATGTAATACTGGGATATTGTTATGTGCTATATAATGTTTTACACAGACACACACACACACACACACACACACACACACACACACACAGAGTAAAGTTGTCAGTTTTAAAACTACATATAGAAGCATGCCTTTCTCACTTTGGCATAATGTAGACCAAGTGTCTAACCATTTCTTCAGTCCAAAAAACCTGATTTGTTTACACTTGCAAGTGAAATGGCCTAGACTAACCACGAAGAACATTGCACATCCTACCTTAGACTCATATGTGCCCTTTGGACTTTTCTTTTTGTTTCACTATTCTAAACTCTTTCTACTTTATCATTTATATAAATGTTTTGTTTTGTAGTTTTGTTTCTTTTTTATTGTTTGTTTTAGATGGATTCCCACTCTGTAGCCCAGGTTGGCCTGGAACTCACTAATTAGAACAGGTTGGCCTTAAACTCATGAAAATCCTCTTGACTTAGTCTCCTGAGTGCTACCATATGAGGCCTTCATTTGTGTTTCTGATGAAGCTTACTTGTATAAAATTACCAGATGGATTTGTTCCACAACAAAAATTTAAATATAATTTAACTCTCCTTAAGCATTTTCTCTCCCCTTTTGTTACAATGTAGAGCAAAAGGCAATTCCTTGTGTGTCAACATCACAACCATGTTGCTATTGACCATGCTGATGGTCTGGGAGTTCTCAGTGCATAGATATTGACACCTTCATCTACTGCCTTCTCCCAGATTGACTTTGCTGGATTCCTTACAAAATTTTGCTGCTAGGAACCTCTTAGTTCCTGAAATTAAAAATCCTCATTTTATATCAATACTACATTCTCCCTAAAGCAAACTTGTTTCAAAGAATTCAGTCCACTGTGCAAAGTTAAATTTTCTTACACACACACACATGTTTTAGGAAGGAAAAATTAATTGTAATGGCATAGGTTTCTTAACCGAAATATTAATTTAACATAAACTAGTATGATGTTCTCAATAGGCTAGTCAGCATGGTTCTGTCTAGCTCTCAAAGTCACATAAATGCTTTATATGCAAACACAGGTGTCTGCAAACTCATCTCATTTCACAAACCACATTGGGGACTATATTGGGTAACACAGGGATAAAAGAAGGAGACGAAGTAGTGAAACCTAGTACTGTTACTCAGAGAAATGGAGCTGTTAAATGCATGTCTGACTTTATAATAACAGAATTGCCAGTGGTCATCCATTTCTTTAACTCTCCTTTTCAACATTTCTAATATAACTTTTAAAAAATCAAATTCCAAATTTGTATACTACTCTATGTCTCCAAAGATGGGAAATGAAATGCTAAATGGAAAGCTTGGATTACTAAAATCAGAATGCCTTATCTCCTTTTATTCAAAAGTATATATAGTTGAAGAATGCAACACACACACACACACACACACACACACACACACACACACACACACACACACACAGAGGTACCTATATATGGAAAGTAAAGACTCTGGCCATTCTGGTTTCTGTAGAATTTGGGTAACTTTCTAAGGAAGAATTGAAGAAGTGTTTTTACTCAGAACTCATCCATTATATGCTAACACTTCCTAG
Seq C2 exon
GTCCTTGTCCACAAGACTGGATCTGGCATAAAGAAAACTGTTACCTCTTCCATGGGCCCTTTAACTGGGAAAAAAGTCGGGAGAATTGCCTATCTTTAGATGCCCAGTTACTACAAATTAGTACCACAGATGATCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000056219:ENSRNOT00000086390:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.383 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF083176=Spc7=FE(39.7=100)
A:
NA
C2:
PF083176=Spc7=PD(4.3=10.9),PF0005916=Lectin_C=PU(24.8=56.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg19)
No conservation detected
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]