BtaINT0087712 @ 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
chr11:98204061-98205111:+
Coord C1 exon
chr11:98204061-98204182
Coord A exon
chr11:98204183-98205020
Coord C2 exon
chr11:98205021-98205111
Length
838 bp
Sequences
Splice sites
5' ss Seq
GAGGTAGGT
5' ss Score
9.65
3' ss Seq
GGGTCTCCTTGTGTCTGCAGACC
3' ss Score
9.15
Exon sequences
Seq C1 exon
ACAACAGGCTGAAGGAGCTGCCGGACACGCTGGGGGAGCTTCGGAGCCTGCGCACTCTGGACATCAGTGAGAACGAGATTCAGAGGCTGCCCCGGATGCTGGCACATGTCCGAACCCTGGAG
Seq A exon
GTAGGTGGGCCGTGCTCTCGCCTGGGGGCCTGCCTGGCCTGCCCGCCGCTCCCCTCCCACATTCCTGGAGGCCTGCCCTGGTCACAGGATACAGGGGTCAAGGAGATCTCAGGGGCTCACAGAGAGAACAGTGTGAATGACTGTAATTAGGTGACTTGCTGTCATAATGGAGGCAGCAAAGCATATTCCTAGTAGAGTGAAAAGCTCATGCTGAATCCTGATGGGTTCATTAACACTGTGAAAGACATGGCGTTTGAGCCAGATCTTGAAAGAGGAGAAAGCTTTGGAGAAGTCGACAGGGCTCATGGGAGCATTCCAGGTGGAGGAACAGTTCGGGAAAAGGCAGGAGATGGGAAAGCCCAGGACGTGTTCAGGGAGGAGCAGGGGAGCCAATGTGGTTGGAAGGCGCTGTGTCTGGAGGGCGCTGGCAGGGAGGGAGCAGCCTCAGCTCAGAGCTGCAGAAACCGTGATTGTCAGAGCTGGGGGCGGAGAGCAAGGCGGTCACCTGGGGCACTGTGTTGTCTCCCGGGGGTGTCCTAACGAAGCGCCTCAGGCTGGGGCCTTAAGATCAAGGTCTTGGTGGGGTTGGTTCTTCTCAGGCCTCTCTCTCCTTGGCTTCTGGACGGCCGTCTTCTCCCTGTGTCCTCCCATCCTCCTGCCTTGGAATGGGTCTGAGTCCTGATTGCCTCATCTTTTAAGGACACCAGTTCATGCTGGACTAGGGCCCAGACTGGTGACTTTGTTTTGAACTTGATTACCTCTTTAAAGATCTTATGTCTTGATTGTGTTGAGCAGTGAAGTGAACGACAGATATAGAGGGGTCTCCTTGTGTCTGCAG
Seq C2 exon
ACCCTGAGCCTCGACGCGTTGTCCATGGTCTACCCCCCGCAGGAGGTGTGCGGTGCTGGCACTGAGGCCATTCAGCAGTTCCTCTGCAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000012844:ENSBTAT00000017067:9
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=0.000
Domain overlap (PFAM):
C1:
PF127992=LRR_4=PD(77.8=85.4)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGAAGGAGCTGCCGGACA
R:
GAGGAACTGCTGAATGGCCTC
Band lengths:
198-1036
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development