BtaINT0087702 @ bosTau6
Intron Retention
Gene
ENSBTAG00000012844 | LRSAM1
Description
Bos taurus leucine rich repeat and sterile alpha motif containing 1 (LRSAM1), mRNA. [Source:RefSeq mRNA;Acc:NM_001075296]
Coordinates
chr11:98224670-98225348:+
Coord C1 exon
chr11:98224670-98224768
Coord A exon
chr11:98224769-98225216
Coord C2 exon
chr11:98225217-98225348
Length
448 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGA
5' ss Score
9.22
3' ss Seq
CCCACGGGTGTGTCTTGCAGGAA
3' ss Score
9.82
Exon sequences
Seq C1 exon
ACGGAGTTAGAAGCCCAAAGCGAAACCAAGCAGGAGAATTACTGGCTGATTCAGTATCAGCGGCTCTTGAACCAGAAACCCTTGTCCTTGAAGCTGCAG
Seq A exon
GTGAGAGTTGTGGGCACGCCCACCCCGCGGGAGCCCTGGGCCCCCGCAGCGCCAGCTCGCTGATCTGTCTGGTGGAATTCCCTTCCCATCTCTGGGGACCGGTGCACCAGGGCCTGTGCTCGGCCTGGGCGGGCACAGAAATGGGGGGCGGGCATTGGTTCTGGTGGCGGGAAGACAGTTCCTGCCGGGTGGAGCCCGCTGTGCACTCACCTCGATGCGCACTTACGTTGCTGGCTTTGTCAGGTTTACTGCGTGGCGGTGAACTAACTGCGTCATGCCTCTGTCTCTCTGCCCTTACTTAGCCGTCTTGGTAGGAAGAGTCCCAGGAATACATTTTACCTCTTGCGTTACGTGTATCTGAACTCTTCGTGTGCTGTTGTAAGTCACAGCCTCGTGGTTTTTCCCGGTCCGTGGTACACTGGGCTTCCCCCACGGGTGTGTCTTGCAG
Seq C2 exon
GAAGAAGGCTTGGAGCGCCCGCTGGTGGCCCTCCTGGTGGAGCTGTCGGCCGAGCACTACCTGCCTATCTTCGCCCACCACCGCCTCTCACTGGCCATGCTGAGCCGGATGGGCCCTGCGGACTTGGCCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000012844:ENSBTAT00000017067:22
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.030 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0764712=SAM_2=PU(63.8=84.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACGGAGTTAGAAGCCCAAAGC
R:
CATCCGGCTCAGCATGGC
Band lengths:
210-658
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development