BtaINT0105599 @ bosTau6
Intron Retention
Gene
ENSBTAG00000004547 | OLR1
Description
Bos taurus oxidized low density lipoprotein (lectin-like) receptor 1 (OLR1), mRNA. [Source:RefSeq mRNA;Acc:NM_174132]
Coordinates
chr5:100244332-100246343:+
Coord C1 exon
chr5:100244332-100244439
Coord A exon
chr5:100244440-100246247
Coord C2 exon
chr5:100246248-100246343
Length
1808 bp
Sequences
Splice sites
5' ss Seq
CAGGTGGGT
5' ss Score
8.56
3' ss Seq
GTCTTTCTGAATCACTCTAGGTT
3' ss Score
9.4
Exon sequences
Seq C1 exon
ACTCTCTCATTCTTGGAATACATTTGAAAATGACTGTTGATGACCCCAAGGGTATGAAAGATCAACTTGATCAGAAGCCAAATGGCAAGACAGCAAAAGGTACTACAG
Seq A exon
GTGGGTAAATGAATACAAGGACAGAGTTAATTTAGACATGTAAACTAACTAAATATAGGAGTAGAAAACTACAATGCCTGGGTGTGGGAAAGTATTAGAGTTAATAACATTTACTTAAAAGGAAAACAAGTCAGATATAATGGTTATTAAAGAAGATAATGATAAGCCAACTTGGTATGAATGATGATGTAGTAGAGGGTGCTGATAACCAACTCTTATTGATCATTTGCTATAGGCTAGTTTCTATGATATTCATTTTATATGCATTAAAGCTTTACACCTTGAGGTTGGGACTACTATCATATCCCTTTTACAGAGGACTAACTGGTAATCAGGAGGATTAACTAAATTACCCAGTTTTATGTGGCTATTAAGTGGTAGAGTTAAGACTGAGCTATAATATGGGAGGAATATTGACCAGAGGGAAATGTCGACTGAAAGATTTACCCAGATATTTTCTCCTAATGCTAGGATTGAGCAATTATTTGCAAGACACATAATTATCTTCAACTTCCTTTCTACTAATTTGCCAGACATATTGTAGAAGCTTAATCACTCTTGAATCAACCATATTCCTTCCTGTCAAAATTTCTATTTGGTTTGATTCATCTGTAGAGTGCATTTAACACTTGAGAACTCAGTGAAAATAGTAATATTTGATCACTGATTGATTTGAATCATTATACATTCACACTGGAGCTTTTATGATGTGATGGTCCAAGCCATGTAGCTACTCGCAATTGGATTAAAGATCTCTGTTTGGATCTTAACATCTGTGTGATCTTAGGCAACTCACTGAATTGTCAGTTTCCTTATTTGCATATAGAGTTAACATTTTCAGTGCCTTATTTGTTTATCTTACAAGGTGAGGAGTCCAAATCCTTTATTTGAAATGTTTTCTTTCTGAACCGGTAGTATCTGTGCTTTTTTGGTGATGAATAATAAGATATTCATACGCTAGTGAGCTACATGATTTGCTTTTATAATAATAGGGCATTTTTTTCTCGTAACAAGAGTGCTATAGCTGATATGAGTGTAGGACATGATATTAATATGAATCGAGTGAATAGAGTTTCATTTATATTTTTTCTTTGGTCAATAACCCCAGGTCCAAGATGTATTTATTTTTAATGAAATAAAAACTAAATAGCATAGAATTATATGTTAGTTCTTTGAGACTTTCTCAGTTGGTTAACTGACTAAAGACTTTACTTGTTTGATGTCTAGTATTCATTTATTATATGTTACTTATAACGGTGGTTATGTGTGTAGGGAGTGTGGGTGTGTGTGCACACATATGCATACATACACATGGTCTATACTGAAAATATCAGACTCTCTGCCTTGTGGTGGAAGTTGATCCAACCAAGCTGCACTGAGAGTTTCTTGAGACAAAGTATATGCTTTAGAATCAGATACTTGGAGAATTCCCAGGTGATCCAGTGGTTAGGATTCCATGCTTCCAATGTCATGGGCATGACTTTGGTCCCTGGGCAGGGAAGTTTAGAGTGGCAAGGCCAAAAAGAAAAAAGAAAAAAAAAAATGAACTTAACTAGAATCAGATCCTTGGAGTCAAATATCTGATATTGAATCCCAGCTCCTAAATTTCATCAGTTGTGTGACCACGGGTAAATTACTTAAAGTTTTTAACTGCTCATATTTTTTGCCTGTAAATGTGGATAGTGAATTATTTGCAGAGTCATTGGAAAGACTAGAAGTAAGTAATGCAAAGTGCCAGGTACAGGCTGGATCCAAAGAATTGTTTGACCACTTACCTCCATCATTTTTGTCTTTCTGAATCACTCTAG
Seq C2 exon
GTTTTGTTTCCTCTTGGAGGTGGTACCCTGCTGCTGTGACTCTAGGGGTCCTTTGTCTGGGATTACTGGTGACTGTTATATTGTTGATACTGCAAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000004547:ENSBTAT00000005975:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.778 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF083915=Ly49=PU(22.0=84.8),PF041569=IncA=PU(16.1=78.8),PF0055814=Vpu=PU(26.1=72.7),PF145841=DUF4446=PU(24.5=69.7),PF148511=FAM176=PU(21.6=66.7)
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:
ACTCTCTCATTCTTGGAATACATTTG
R:
GCAGTATCAACAATATAACAGTCACC
Band lengths:
201-2009
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]