RnoEX0051221 @ rn6
Exon Skipping
Gene
ENSRNOG00000022312 | Lrsam1
Description
leucine rich repeat and sterile alpha motif containing 1 [Source:RGD Symbol;Acc:1564403]
Coordinates
chr3:11972813-12001645:-
Coord C1 exon
chr3:12001551-12001645
Coord A exon
chr3:11974261-11974406
Coord C2 exon
chr3:11972813-11972938
Length
146 bp
Sequences
Splice sites
3' ss Seq
TGCTCCTCTGATTTCCTCAGAGT
3' ss Score
8.55
5' ss Seq
GAGGTAAGT
5' ss Score
11.08
Exon sequences
Seq C1 exon
ACAACAAGCTAAAGGAGCTTCCGGACACCCTGGGGGAGCTGCGGAGCCTGCGTACCCTCGACATCAGTGAAAATGAGATCCAGAGACTTCCCCAG
Seq A exon
AGTTGAAACCACCCAAGAATGAGGTCTTTGGTGTCTCTGAGCCCCCCACAGCCCCTCAGGAGCTTCCTGAGTCCGTGAGACCATCTGCCCCGCCAGCTGAACTGGACGTGCCGACCTCAGAGTGTGTTGTGTGCCTGGAACGTGAG
Seq C2 exon
GCCCAGATGGTCTTCCTCACCTGCGGCCATGTCTGCTGCTGCCAGCAGTGCTGCCAGCCGCTGCGCACCTGCCCACTGTGCCGCCAGGAGATCTCCCAGCGCCTCCGGATCTACCACAGCAGCTGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000022312_MULTIEX1-16/16=C1-C2
Average complexity
C2
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (No Ref, Alt. Stop)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=0.551 C2=0.000
Domain overlap (PFAM):
C1:
PF127992=LRR_4=PD(79.5=85.4),PF153711=DUF4599=PU(43.4=87.8)
A:
PF139201=zf-C3HC4_3=PU(23.9=22.4)
C2:
PF139201=zf-C3HC4_3=PD(71.7=78.6)
Main Skipping Isoform:
ENSRNOT00000060186fB8126
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTAAAGGAGCTTCCGGACACC
R:
TCAGCTGCTGTGGTAGATCCG
Band lengths:
213-359
Functional annotations
There are 2 annotated functions for this event
PMID: 15256501
Encodes an experimentally validated Eukaryotic Linear Motif (ELM). Method: mutation analysis, two hybrid. ELM ID: ELMI001342; ELM sequence: TPTAPQ; Overlap: FULL
PMID: 15256501
Encodes an experimentally validated Eukaryotic Linear Motif (ELM). Method: mutation analysis, two hybrid. ELM ID: ELMI001343; ELM sequence: RPSAPP; Overlap: FULL
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]