BtaINT0087703 @ 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
chr11:98225217-98226702:+
Coord C1 exon
chr11:98225217-98225348
Coord A exon
chr11:98225349-98226620
Coord C2 exon
chr11:98226621-98226702
Length
1272 bp
Sequences
Splice sites
5' ss Seq
AAGGTGGAC
5' ss Score
2.93
3' ss Seq
CGCCCCCTCGGTCCTCGCAGGTG
3' ss Score
10.12
Exon sequences
Seq C1 exon
GAAGAAGGCTTGGAGCGCCCGCTGGTGGCCCTCCTGGTGGAGCTGTCGGCCGAGCACTACCTGCCTATCTTCGCCCACCACCGCCTCTCACTGGCCATGCTGAGCCGGATGGGCCCTGCGGACTTGGCCAAG
Seq A exon
GTGGACCGCGGCGGCCCCCCGAGGGAGGTTAGGGAGGCGGGCAGGGCCCTGACCCGATGGCCAAGGGGGGACTTGCCCTTCACGCAGTTCTTGGCAAGGCTTGCCGTCTGGAGATGTCTTGGGGCCGCCTTGCTCCCAGCGGGCCAGGACACCTGCCCTGTCTTCCCCCAGTCACCTGGCTGCAAAAGCCAGAGCTGCAGGTGCTGTGGACCCCAGATTGTCCCCTCCGCCAGCCCCTTTCAGGTGGGATCTTCACATCATAGGCTGGGCAGGTCCTTGCAGGTCATCTGGACCGTCCTTTCCCCACATCCTGGGTTGACAGTTGTATCGGCAGCACTGCCTGCGCCTGGTACAACCTGTGTGAATTCATTTACTCTTCAGAAGAGACAAATGCTGACTCTGGGGAATACTTAACAGTGCTTGACACTGTTAAGCATGTTTTACATATAATCGTGTTTTAGATAAACATCTAAGCGTGTTTTACATATACATTCATCGAATCCTCATAATAACCTGGGCTTCCCAGGTAGCACAGTGATAAAGAATCTGCCTGCCAGTGCAGGAGACACAAGAATGTGGGTTCAATCCCTGGGTCAGGAAGATCCCTTGGAGAAGGAAATGGCAACCCACTTCAGCATTCTTGCCTGGAGAATCCATGGACGGAGGAGCCCAGCCGGCTGCGGTCCATGGACTCAGAGTCGGACACGACTGAGCACACACACGATAACCTGGGCAGGCAGGTACAGTCATGGTCATTTTTCAGGTGAGGACACGGAGACACAGCAAGGTAGCAGTTTGCCTGAGGTCATATGGCGGAGCCATGTCCAGCCCAGGCGGCTGGTCTGGTGTGGGGGCCGTGCTGTCGCCACTCTGCTGAACTGCCTGGTCCCTCGACAGAGGCAGACACAGACCCCGGGGCTCAGAAGGACCATGTGGGCCGTGTTGCCCACGTTCAGGAGCACTTGCTCTGGAGGCTGAGGGACTGAGCTTCTCGTGCGGCTACTTTGCAGCTGTTCGGCCTCGGTGTGAACCACCTGACTGTGTGAACCGACAGCCCACCGTTGTAGGCCCAGCCCCTGCACTTGCTGGACAAGGGCTGCCAGTGCTGGGTTCCCTCTCCTTCAGCCGCACTGATGGCCTGGCTGTCAGCCTCCACGTGTCTAGTCGAAGGTGCCAGAAGTCGGAGGAGGCGGTCCTGGCGGTTCTGTGCTGCGCCGCAGGCCCCCTGCCCAGCCGTGCCCAGGCCCTGACCCGCCCCCTCGGTCCTCGCAG
Seq C2 exon
GTGGGCGTCTCGGAGGCCGGCCTGCAGCACGAGATCCTGCGCAGAGCCCAGGAGCTGCTGGACGCCGCCAGAGCCCAGCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000012844:ENSBTAT00000017067:23
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=0.036
Domain overlap (PFAM):
C1:
PF0764712=SAM_2=PU(63.8=84.1)
A:
NA
C2:
PF0764712=SAM_2=PD(32.8=67.9)
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:
GAAGAAGGCTTGGAGCGC
R:
AGCAGCTCCTGGGCTCTG
Band lengths:
191-1463
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development