BtaINT0105565 @ bosTau6
Intron Retention
Gene
ENSBTAG00000038584 | OLFM1
Description
Bos taurus olfactomedin 1 (OLFM1), mRNA. [Source:RefSeq mRNA;Acc:NM_001101879]
Coordinates
chr11:106691340-106693789:-
Coord C1 exon
chr11:106693634-106693789
Coord A exon
chr11:106691560-106693633
Coord C2 exon
chr11:106691340-106691559
Length
2074 bp
Sequences
Splice sites
5' ss Seq
AAGGTACGT
5' ss Score
10.75
3' ss Seq
AGCTTATTTTAACCTTGCAGGCG
3' ss Score
7.71
Exon sequences
Seq C1 exon
GTGCAGAACATGTCGCAGTCCATAGAGGTCCTGGACCGGCGGACCCAGAGGGACTTGCAGTACGTGGAGAAGATGGAGAACCAGATGAAAGGGCTGGAGTCCAAGTTCAGACAGGTGGAGGAGAGCCACAAGCAGCACCTGGCCAGGCAGTTCAAG
Seq A exon
GTACGTGTGTGGCTCCTGCGCCTCCCCTCCCCCCTCCTTCANNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNTACCCTCCCGCCTTTTCTCCCCTCCCCTTCTCCTTCCCCCACTCCCCTCCTCTGAGACTGTGATTCCCGCTCCTGCTCCCACTTTCCCTCCAGAATAGCAGTTTGAACCCAGGGAGGAGCCCAGCAAGGATTGCTCTTTTTCTTGCCAATGGCAGCCTTCCTTGGAAGTAGAGAGGCCACCTGCCCTTGCCCTGGTTTGGTGGAAATTCACCTTGAAAGGGGCAGAGTTGAGATGTGGTTTTCACACCTATTAGCTTCCCAGGCCAGGACCCCAGGCCCCAGCTTCTCCAGCCAAGTCACAGATTAGCTGGGAAGGGACGTGATTGGTCCTTCCCGACCCACAGCTGCTGCAGGTGAATCACATTAGCCAAGGATTAGCTTAATTGATTAGAGCCATTTCTGAGCAGGGATTGCTCAGGGCAGTTCTTCACATCTGACCTAATTTAGCGGCAACAAGGCTCACTGTAGATGTGCAGGAAGGCAGAGAGACACCAGCATCTTTCTCACCTCCCGGTTAGTCTTTGTTTTCTCCACATAACTCCACTGTTAAAGCCAGAGTTGGTTTGACCTAAAATTATATATACATATGTACAAATATGTATATATACACCTAGAGTTTACTCAGCTTCAAAATCATTAAATTGACAAATGATATGCACCTTAATTAAGGCATACATGCATGTTAATTAGAAACCAAGCCCAGATGTAAATGAACGGGTCAAATTACACAGCCCCGCTGGACTGCAAACTGCTGATGCTCTGGGTCTTCCGGCCTTTTTATGCTAATGTTTTCCTTTGATGCTCTCCCTGTGTGCAGCAAGAACTAATTCTCTTGTAAAAGCCATACATTATATAGACGAAATGGCAAGCTAATGAAGTTATAAATCTATATGATAAATAAAATAATAGCAGCTTTATCCTGTTGAGGCGAAATGAGCCAGTCTCTCTTGCTGGACTCAGGTGGACCTGTCCTTGCTTCTGACATGTCACCATGAATTATCTCAGAAAGAAATTTTGACCTGCCTGACCCAAAAGAGCTTGTGTCTCTCCTCATAAGGCCAGCACTCTCTTCCCGGGGGTAGACTCAGATTCCTCTAGGGATGTCTTCAGCATCCATGGGCTGGCTCCTCTTTGCAGGCATGCTCTCCTAGTTCCCAGATATTGAATCCTATGGCTCTGGCGGGGAAGACAGGCTACCCTTACTTCTGACCACACTTTAATTGCCTTGAACACTTGCAGCAGCAATTGCTGTGAGGGTACTTACATGACTGTGAAAGCAGTTTGTCTGGACTGACTCTAGCCTTGAAGCGTGATTTTTTTTTTTAAGTGAGGGTGAAAATATTTGTCTGTTAATGGCTATCTGTTTCAGGCAGGCTAGTAAGCTAGTTCTTCAACAGTTTTCATTTTCTTGCTTGCAGGGCTAACTTAAAAGAGTTTTTTCAATGCTGCAGACTGAAGAAGCAGTCCACTCCCATGTAACCATGACAGAGGGCCAGAGAGCTTTTTTGCACCCTGCATTTTTACTATTATTTCCCGTTACTTAGCACCATGCCCCTAAGGAACCTTGAACACAACCAGGATCTCTTTTGCATGTGACTGTAGATGCATTTCATGAATAGTTTGAACCCTTGTCAATGCATTTTTTGAAAAAACAAAAACAAACAAAAAAAGAGATACTTTGTGTATGTGACTCAAAGCATGTAACCTTAAGATGTTGCATTCTAAACTGACAATAAAGACCTTTCCCAAATATGTTGGTGTTCTGAAGACTGTTTAATATACTCTTCTAACTCCTGTGGACCAGAATAAATCAAACTATAAAGAAAGCGGGAGTGTGGACATTTTCCCTCACCTAGGGAGAAGCCAGGCCAAGGCAGGGTGTTAGAAGTTTTTGCACGCATCGCACTGAACCCAGCTTATTTTAACCTTGCAG
Seq C2 exon
GCGATAAAAGCGAAAATGGATGAACTTAGGCCTTTGATACCTGTGTTGGAGGAGTACAAGGCCGATGCCAAATTGGTATTGCAGTTTAAGGAGGAGGTCCAGAATCTGACGGCAGTGCTTAACGAGCTGCAAGAGGAAATTGGCGCCTATGACTACGATGAACTGCAGAGCAGAGTGTCCAATCTTGAAGAAAGGCTCCGTGCGTGCATGCAAAAACTAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000038584:ENSBTAT00000061530:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.202 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0081212=Ephrin=PD(46.3=96.2),PF123083=Noelin-1=FE(50.5=100),PF149421=Muted=PD(54.3=96.2),PF130121=MitMem_reg=FE(66.2=100),PF100464=BLOC1_2=PD(67.6=92.3)
A:
NA
C2:
PF123083=Noelin-1=PD(0.1=0.0),PF101864=Atg14=FE(41.7=100),PF0154011=Lipoprotein_7=PD(45.9=90.5),PF138741=Nup54=PD(56.9=89.2),PF045087=Pox_A_type_inc=WD(100=28.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
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]
SPECIAL DATASETS
- Pre-implantation embryo development