RnoINT0087328 @ rn6
Intron Retention
Gene
ENSRNOG00000022312 | Lrsam1
Description
leucine rich repeat and sterile alpha motif containing 1 [Source:RGD Symbol;Acc:1564403]
Coordinates
chr3:11977719-11979692:-
Coord C1 exon
chr3:11979597-11979692
Coord A exon
chr3:11977818-11979596
Coord C2 exon
chr3:11977719-11977817
Length
1779 bp
Sequences
Splice sites
5' ss Seq
CTGGTATGT
5' ss Score
8.14
3' ss Seq
CTGGCTTCTGTTCTTGGCAGGCG
3' ss Score
8.49
Exon sequences
Seq C1 exon
GAGATGGTCTCAGAGCAGCGCTGGGCGCTCAGCAACCTGCTCCAGCAGCTCCTCAAAGAGAAGAAGCAGCGGGAAGAGGAGCTCCATGGCATCCTG
Seq A exon
GTATGTTCTTGGACTTGTGCTACACGTCCCCTGGGCCTGTGTGCATCACACTGGCGTGCGTGGCCTGGGCGTGCTCACTGTGCTTTTGAAACACTTGTTATTCCACTGTAGGTGCTCATCAGAGGGGAGCTAAAGGGGAAGGGACAGCGCCACTCGGCATCTGTTTTAGCTTCTTGTGAACCCTTGTTATAAGGGAGAGAGTTTGTTTTCACTCACAGTCGAGATTACAGTCCCTCCTGTGGGGAAACTGCAGCCACAGAGCTTGAGACAGCACAGCATCTCCAGAATCAAGAGTAGGGTGTAATGAGCATACAGCCAGTGTTAGCCTCTGTCCACAGTACTCCCTGTGTCAGTGCTCCCCAGGGTGGCACTCCCCGGGTCGGGGCTCCCCAGGGTGGTGCTCCCCGGGCCGGTGCTCCCCGGGCCAGTGCTCCCTGGGCCGGTCCTCCCTGGGCCGGTGCTCCCCAGGCCTCAGGATTCGGAGACAGCTCTGACTCTTCTCTTCAGCACAGGACAGGACATACTAAGAACAGACCACTACTTTTAGCAGGAGCAGCCTAACCCTTCTCGTTGCCTTTTACTCCGGTATATGTCAGATGGGCTGAGCCCCACTTACAAACACTGCTCCAGACTTTTGGGTGCCTACATAGAGGGCCAGGGCTGAAAAGATGGAATCACTCCTTTCTGTGACCGTCTCAAACGTCCTAGGCCAGCCGAGGAGAGTGAAGCCAGCTCCTACAAAGCACCCACAGCCCATCCAAACTGACCCAATACCCATAGCGCATGAGCACAGGCTAAGGGAGGAAGCCCCAGGTTAGCATACAGTCGGGACCATGGGCTCAGGAGGGACATCCTGTACTGTAATCCCAGCCCCTCAGAGCCCAATGGGGAAGATGGTGATGTCCAGGTCAGCACAGGGCCATAGCAAGACACTCTTTCAGAAGAGTAATTGTGCAGAGACATGACAGTCTCGCGACATGCAGCTCAGCAGTAAGAGCGCTTGTTGCCAGACCTGATGAGCTGAGTTCCTCCTGGGGACACTTGGTGGAAGCAGAGAACCAACGCCCAAGTTGTCCTCTGACCTCCACACACGTGTTACGGGGGTGGAGTGCATGCACACTGTTAATGTAGTTACAGAGGGAAGGAAGGAAAGTGGAGTTCTTGGCTCTCTCAAGGAGGAACCATTAAAAGAGTCAGACACAAGACTGAGCATGGCCCACAGTGATGGTTGCTATGGTGATAACCACTCAAAATCACTAGCTCACTGCCTCATCCTGGAGCCTGGGTAGCACCCACTCAGAACAACCCTTTATGAGTGGTCCCCACATAGGAGAGTGGGGACATCCCTGCCGTTGGCATGTCAGCTGTGTCCAGCAAAACAACTCGCTCAGAAGTCCTGGAGGTCCTGTAGCCGCTGGCTGTCATCCAGAAGTAGGCATGCCCTTGTTGGGGACAAAGATGGCTGCACAAGACTTTTCTGTTCCACAAATGGACTAAGGGGGTCCCTCAGAGGTGTAGCAGAATGTGGGACTCAGTGCGGGAGGCAAGGAGCAGGCTCCCGGTGCCACACGTGTGACTTAGACAGCTCCCTGCCCTTCCCCACGCCCACTCCCTGCTGTTGGGCACAGCTGGGCTTCCTGCCTTTGCCCTGTGACTTAAATCAGGGACAGTGAAAAGTCAGACACTCTTCAGGAGCATAGTAGGCAACACCATGGTCTGGTAGTCTCTGTTTCCAGAAGTTAGCCAGTAGCTAATGGTGCTGGCTTCTGTTCTTGGCAG
Seq C2 exon
GCGGAATTAGAGGCCAAGAGTGAAACGAAGCAGGAAAATTACTGGCTCATCCAGTACCAACGGCTTTTGAACCAGAAGCCTTTGTCCTTGAAGCTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000022312:ENSRNOT00000060186:20
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:
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:
GATGGTCTCAGAGCAGCGC
R:
GCAGCTTCAAGGACAAAGGCT
Band lengths:
191-1970
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]