BtaINT0087711 @ 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
chr11:98202980-98204182:+
Coord C1 exon
chr11:98202980-98203064
Coord A exon
chr11:98203065-98204060
Coord C2 exon
chr11:98204061-98204182
Length
996 bp
Sequences
Splice sites
5' ss Seq
AAGGTAGGG
5' ss Score
8.76
3' ss Seq
TGCCACTGGGACCCCTCCAGACA
3' ss Score
3.27
Exon sequences
Seq C1 exon
GTCTTGAACATGGAAAGGAATCAACTGACCTATCTCCCACGTTCCATTGGGAACCTGATCCAGCTCCAGACCCTCAATGTGAAAG
Seq A exon
GTAGGGGGCCAGGAAGCCCTGTCCACGTGACCCTGGGTCTGCTCTGAGCTGACCCGGCTAGAGTCCCCAGGGTGCTTGTCCTGGGACCCATTGAGCACAAGAGCAGCCAGCCCCCACGTGTCACTCAAACTGTTGGACCTCCTTTGTGGTCGGTGTATCTCCATGGTAACCAGAGACAGGGCGTCTGGAGGGTTCCTGCAGCTCCTCCCTGTCGGGGCCTTACAGGGAGGAGAGCAGACAGCATTGACAGCAAGGCCCCCAAGACTCTGTCATTCGTGTTTAGAGCCATGGGCGATGCATGATGAGAGTGTGGACTGAATGGGTGAGAGCTATTCTGAGTATCCCTTCCCACCCAGTGAGGAGCGCTTCCACACTCGGGGGTGCCACAAGTGTGTGAGAGAGGAAGGAGGTCTTATCCCCAATTTACAGATGAGGAAAACGAGGCTCAGAGAGCCATGACTTGCTCAAGACCAGCCAGTGCGGTAGTGACTGAGCTGAAATTCTAACACGTGCCTCCCTGTACCCCCAGCTCTCTTCTTTCTTCTTTTCCTCCAGTTCTTTCTGCACAGGATGCCATAATTTACCCATTTGTAACATATAATTAATGATGAACATAATAGCACCCAATTTACTGATCACTTACTGTGATAGGTACCTCATGTGATAGGCCCTGTGCCGAGCACCTTTTCACATGCATCATCTCTTTGAATCCCTCAGTATTCCTATAAGGCCAAATAGTGTGGGCACCTCCATTTTACTGATGCGGAAACTGGTCCAGGGAGGTCAAATCAGTTTTCCAAAGTCACTCAGCTCATAAGTGGTGGAGCAGGGACTTGAACCTGGGTCATTGAAACTCCACCGCTCTTCCTCATGGAGCAGAGGTATACCCCAGGCTCAGAGGGAGGCACCCAACTCCGCCCAGTCCTGGCGGGTGTCAGGCCAGAAGCTGGTGAAGGGGCCGTGGGGTGCTGAGCTGTGCCACTGGGACCCCTCCAG
Seq C2 exon
ACAACAGGCTGAAGGAGCTGCCGGACACGCTGGGGGAGCTTCGGAGCCTGCGCACTCTGGACATCAGTGAGAACGAGATTCAGAGGCTGCCCCGGATGCTGGCACATGTCCGAACCCTGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000012844:ENSBTAT00000017067:8
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(39.1=62.1),PF127992=LRR_4=PU(20.0=31.0)
A:
NA
C2:
PF127992=LRR_4=PD(77.8=85.4)
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:
GTCTTGAACATGGAAAGGAATCA
R:
CTCCAGGGTTCGGACATGTG
Band lengths:
207-1203
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development