BtaINT0086016 @ bosTau6
Intron Retention
Gene
ENSBTAG00000006951 | LMO2
Description
Bos taurus LIM domain only 2 (rhombotin-like 1) (LMO2), mRNA. [Source:RefSeq mRNA;Acc:NM_001076352]
Coordinates
chr15:65405854-65407118:-
Coord C1 exon
chr15:65406868-65407118
Coord A exon
chr15:65406086-65406867
Coord C2 exon
chr15:65405854-65406085
Length
782 bp
Sequences
Splice sites
5' ss Seq
TCTGTATGT
5' ss Score
3.86
3' ss Seq
TCTCTCTTTGGCGTTTGAAGGGA
3' ss Score
7.3
Exon sequences
Seq C1 exon
CTCAGACCAGCTTGGTCCCTCCCAAACACCCTCCCTCGGGATTAGCTGCCCCTGGTACTGCTCAGGCGTACCCAGCCCGTGCGGTCCCTGCTCGCACAGCTCCCGTCGTCTTTTTGGAGCGCGGACGCAGTCACAAGTCCTCAGCCAGCAGAGCCGCGCTGTCTTGGGGGCATCTCCGCGTTCCCTGACCGCGGACGTGGGACCTCCAACCCCGGACGCGCGCGAAAGCCACTTGGAACGCGTACATCTCT
Seq A exon
GTATGTGTTTATTTCACATTTTCGTTTTTTCTTTCTTCCTTGAGCGGCCCGCTGGTCACTTTCAATCTTAGTTAACCAAAAGGGGAACGCCGAAGAGGGAAAGCCCTAAAGAATGCTTTACAGGCAACCCAGCCGCCTCTCCAAGGAGAGGTGTTCTCTGAGCGAGTCTCCCTGTCCCCGACGCTGGCCCCTTTAAGAAGCCAACTCAGTCTTGCTGCGGCTGCCGCTGTTTGTATCGCTAATCCCCAGGAGCCCCGTTTAAAAAAAAAAGGGAAGAAAAAAGATGGGGGGGGGGCGGACTGGGCAGCTGTCTCTTTAAATGTGATTTCCTTCTATTGTATTTGAATCGTGATCAGGAAAAAGGAAATGAAACCAGAGACAGAGGGAAGCTGAGCGAAAATAGACCTTCCCAAGAGAGGAGGGAGCCGGGGGAGAGAGGCGCGGTGTCCCCTCCCCGCCCCCAGGCCGCCGCCCCCTCCCTGCCCTCGGCGGCGAGCTGCGCGCCGCAACCCCGGCTGAAGGTGCGAGGGGCGCGGGGCGGCCGGGCGGGCGCGCACCATCCCCGCGGGCGGCGCGGAGCCGGCGACAGCGCTCGAGCCGAGCCAGACCCGGCGGCGGCGGCGGCGGCGGCGGCGGTGGCGGCGGGACCGGGATGGAAGGTTAAGTCCTGAGCAGCAGTAGCAGCTGCAGCCGCCCGGGGCCAGGCTGCGCGCCCCGGTCCCCTCCTCGGCCGCGGCGCGCCGGCAGCCCGGTGATTCGCTCTCTCTCTTTGGCGTTTGAAG
Seq C2 exon
GGAGCGCGGTGACTGTCCTTGAGCGCGGAGGGGCGAGCTCGCCGCCAGAGCGCCGGAGCAAGAAGAGGCGCAGGAGCGGCGGCGGCGGCGGCGGCGCCCGAGCACCCGAGGGGGTCCGAGCCCCGGCAGCCGGCCAGCCCCGCGCCACAAAGGGAGCGCCCCCGCCGCCTGGCACGCCACCTCCCTCCCCAATGTCCTCGGCCATCGAGAGGAAGAGCCTGGACCCATCTGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000006951:ENSBTAT00000009126:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=0.143
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
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:
CAGTCACAAGTCCTCAGCCAG
R:
TCCAGGCTCTTCCTCTCGATG
Band lengths:
347-1129
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development