BtaINT0087701 @ 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
chr11:98223304-98224768:+
Coord C1 exon
chr11:98223304-98223399
Coord A exon
chr11:98223400-98224669
Coord C2 exon
chr11:98224670-98224768
Length
1270 bp
Sequences
Splice sites
5' ss Seq
CTGGTACGT
5' ss Score
9.57
3' ss Seq
GTCTGCTTCCTTCTTGGCAGACG
3' ss Score
8.48
Exon sequences
Seq C1 exon
GAGATGATCTCGGAGCAGCGCTGGGCCCTAAGCTCGCTGCTCCAGCAGCTGCTCAAGGAGAAGACGCAGCGAGAAGAGGAGCTCCGGGAGATCCTG
Seq A exon
GTACGTGTGTGGCGTCCACGTCGAGCGCGGGGTTGCTTTCTCTCTGCACTCACGCTGTTCTTAAACCCACATCATGCGCCGGGTTCCTTTCCCTCCAAGCCCACTGTTAGAAATGTTTCGTTATCCTAGACATCCCCTGAGCTCCACCGTGGGCCGGGCCCTCTGCCAGGAACAGACAACAGCCAGGCCAGTCTCTTCCTGAGCCCCACACGAGCCCGGGTGGTACGTTTGTGCCATTTGGCACAGACCACGTTAACATGTGCTGTGCACAGCCAGCCTTGTCGTGGCCAGGCTCCCGCCCACAAGGGACCTTGGGGACTCGCTGTCCACCACAGCAGAACGTGACCATCAGGGTCACAGGCTCCCGAAGAGAGGTGTGTCCACAGTCCAGAGAGGGCCAGGCCAGAAAAGGAGAGTCACTTAGCTAGGTCCAAGAGGGGCTGCCCAGGGAGCTAGGGGATGCCCGGGTTGCAGTCCCACGGCCCAGCATGCAGCCGCGGTCCTGGCTGGGCGGCTTGGTGGCTCAGCACAGGCTCCAAGCTGGGTCTGAACCTGGCTCTGACTCGAGACGGCCCTTGGCTCTTGGGCCGGCTGCTAATCACTCTGCCAGTCGCTCAGTCTCCTCACCTGTGACGTCGAGACTGCTTCACAGAGTTGTGAGAACTGAGTAAAAGGGCATCTCCCAGCGCACAGCAGACTGGCACCGAGTGCCCTGCTGCTGGTGTCACGAGTTTACTCCTCCGTCCCCAGCACCTAGAATAGTGCCTGGCCCAGAGCAACACTTGTGTTGTTTGTTGAGTGACGGGGTGGAGGAATCCATGTGAACAGCTAACTTCCTTGCGCACCTGTCTCTGTGCCCAGGTCCTGTGTGGACACACCTCTCTCCTGTTCTCAGTGCTCCGGCTTTGTGGGTGAAGGTGGGCGAAGTGCCCTCTGGAAGCTGAGTTACCCTAGCATCCCAGTTCTCTCCCTGCTGGCACCCAGAGCACGCGCCGAGCCTCCGGGGGCAGATGGCTGCCTACGGCTTTGTTTTTGCCACAGGGAGGTGGGAAGGTGTCTCCCCTCCAAGTCATGACGCCCGGGGTGGCGGGGGGCAGGGGCGCCAGGTGTCAGCCGCCCAGGTTCCTGCAGCTGAAACAGTGAGACTTAGTGGAGGGGGATGTTCTTGGTAAAACACCAAGTCCATCCATATGCCATTCACAGCCACCCGTGCCATCAGCGTTTCTATTCACTGACTCGTAACGAACAGTGTCTGCTTCCTTCTTGGCAG
Seq C2 exon
ACGGAGTTAGAAGCCCAAAGCGAAACCAAGCAGGAGAATTACTGGCTGATTCAGTATCAGCGGCTCTTGAACCAGAAACCCTTGTCCTTGAAGCTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000012844:ENSBTAT00000017067:21
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=0.030
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
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:
GAGATGATCTCGGAGCAGCG
R:
GCAGCTTCAAGGACAAGGGTT
Band lengths:
193-1463
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development