RnoINT0105308 @ rn6
Intron Retention
Gene
ENSRNOG00000056219 | Olr1
Description
oxidized low density lipoprotein receptor 1 [Source:RGD Symbol;Acc:620515]
Coordinates
chr4:163254975-163257747:-
Coord C1 exon
chr4:163257646-163257747
Coord A exon
chr4:163255221-163257645
Coord C2 exon
chr4:163254975-163255220
Length
2425 bp
Sequences
Splice sites
5' ss Seq
AGTGTAAGT
5' ss Score
8.46
3' ss Seq
TTTAATTCTCTCTGGTTTAGTAC
3' ss Score
8.2
Exon sequences
Seq C1 exon
GGCTGCATTTGCTTTCTTCCACATGGTGGTGCCCTGCTGCTGTGACTCTGGCCATCCTTTGCCTAGTGTTATCAGTGACCCTTATTGTACAGCAGACACAGT
Seq A exon
GTAAGTATTGAAATAGAGAACTGGAGGTGGGAAATGAGGGTTATGAACACAGCTTATAACAGTCAGTTCAGACCAGCCTAGCCTTATGTTCATTTTAGGCTAATATTATGTATTTATACACATTAAGTATATCATTAAGTATTAATGGCCATACTGTGCTCATTCCTCCATTTGAAAGGGGTATGGGATGGGGACTGTTCACAGTAGATTGTTTTTGTTTTCCTTCATAATTTTATTGAGGAGCCTAGTTTCACCTTAGAATAATTTGGTAATAATTTGAATTTTCTAATACACAGGGTTACATCTGAGCAACCCAAGAGAAAGAGAAATCCCATTTACTTTGGTTTTGATATATTTGATTAAATGTTAAGAATCATATCGCCCCATTAAAATAAGTAGAACACTGATAACAAAATGTCATTTGTGTTTATAACATGTAGAATATTAGAGATGCTGAGAAAGAGAAAGTAGTGAGAATAAGAACGAGAGTGGCTAAGAAGGAAAGATAATATTGTCCCTGCACCAGCCTGCATAAGCAGGTTGCTGGTCTGAATTTTTCCACCAGCCAGGGTCCAAAATGTAAGGACTCAAAAGTACCATTTGCTTCCTACATGTCTAACTCATCTAACCCCTTGTAATTGGGGGAACGGGTATGTGGGACTTGAGGTCTCTCTTAATGATGGTTCAGGACAGGGGATCCCACCCAACAGCAGCAGTCAGAAGAATCTACCTTTGAGGTATCAATCACCACCCAGCAGGCTTGATCAGATTTGGCCTATACACTAGAAGCAATACACTGGAAGAGAGCTGAGTTCCTAGAACCCAGTTCTTTAAATCTATTCAATTGCACAACATTCATTTCATCTTCACTCTTCTAAACTATTTATAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAGAGAAAGAAAGAAAGAGAGAAAGAAAGAGAAATTTCACTGCCAACATACAGAAATTTACAAATATTTCATGGATGGTTGTCTCAAAAATGAAGGCAAATGTCAAAATTCCTAAATAAAATTAGGAAGTCTGGCAGTGTAGACAGAGTGGGAGGAGCTATAGAGAAATTAAGCTGAATAAATTGCTGATGGCAATTTCTTCTATGAGTCAGAGTTAGGGAAAAGGTGATGACTATAGACTGTCAATATTTTATTTATTCCATTATAGTATTTCTTACTTTATCATTACTTTAAAATTTTGTATTTTACAGTTTTATGGTTTTGGGAATTTCCATTATGTACATAATGCATTTTGATCAAACACATTCCCATTTTCTCCATTTCAATTCCTCCCCACACACCCATGCCCTCTTTCCTCTGAATTTCACGTGCTCTGGTTTTCTTCTTAATCCCATTGACTCTACTTAATGCTGCCTGTATGAGTATGGTATAGGGCCCTCTGCTGGAGCATAGGTGACCTCGCAGAGGTCACATCCGTAAAGAAAACTGACTCTCCCTTTCCAGGATCCATCAATTGCCAATAGCTCCTCAACTAGAGGTGAGATTTCATGAACTAATGCCCATCCATTGTCTTAACCTTATTATTTTCATAGCTTGTACATATACATACCCATACACATATGTCATATACATATACAAACACCTACACATGCATCATATACATATAATAAACATAAACATATACACATACACATACACACAAACATCATGTTCATATACATATATACATATACACATCATATACATATATATCATATACATACACATACACATCATATACATGTACACATACAAATACACATGCATATATATCATATACCTACACATATGCATACATCATATACATATTCATCATATACATTACATCATATACAAACATATATACAAACATATAAACATACATACACACACATATATACATATATATACACACATATATATACACATATATGTACATGGCATTCTGCATGCTGATCAAGTCCTCTGCCACCTGGGGACATCACAATCTCCCATCCCTATGCCAGAGCTACATCTCCATCCCTCCCTCTTGTGCCACTAAGCTATATCTCCATCCCTCACCACTCTGCCACTAGGCTATTCTGTCATCTCTCAAGAAAACATAGAACTGTGGCAACTTTTTTTTTCAGAAATATATGCAAGATCACTAAAAAAATTACAAAAAAAATTCAATTTTGAAAACTACAGTTAAATAACATTTAAGTCCATAAATTGTGAATAAGCATGGGCCATTTTTTAGAAGTCATTCAAGTGCATTTAGACCTCCATTATTGTTCAAGTTCATCGAACATTTCTGTCAACACTAATCTGTGTCAAGATAGATTGTTTAAGTCGGTGTCTTAATTTCATGGACATCCTGGGGCAGCATACATATTGGACAGGCTAGGCTGACTTTTAATTCTCTCTGGTTTAG
Seq C2 exon
TACTCCAGGTATCTGACCTCCTAAAGCAATACCAAGCAAACCTTACTCAGCAGGATCATATCCTGGAGGGGCAGATGTCAGCCCAGAAGAAAGCAGAAAATGCTTCACAAGAATCAAAGAGGGAACTGAAGGAACAGATAGACACCCTCACCTGGAAGCTAAACGAGAAATCCAAAGAGCAGGAGAAGCTTCTGCAGCAGAATCAGAACCTCCAAGAAGCCCTGCAGAGAGCTGTGAACGCTTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000056219:ENSRNOT00000086390:2
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=0.253
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF083176=Spc7=PU(15.5=21.7)
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]