DreALTD0011010-2/3 @ danRer10
Alternative 5'ss
Gene
ENSDARG00000060683 | lrsam1
Description
leucine rich repeat and sterile alpha motif containing 1 [Source:ZFIN;Acc:ZDB-GENE-060526-97]
Coordinates
chr5:32281941-32282499:-
Coord C1 exon
chr5:32282399-32282499
Coord A exon
chr5:32282289-32282398
Coord C2 exon
chr5:32281941-32282123
Length
110 bp
Sequences
Splice sites
5' ss Seq
CAGGTAACG
5' ss Score
10.52
3' ss Seq
TTTTGTCCTACTTCTATTAGTTC
3' ss Score
6.14
Exon sequences
Seq C1 exon
TTGGCAACCTTTCACACTGCGGCGACGCATTACGTCATTCACAACATCCGAGAAGTTGTTCCTGGTGTTTGTGGTGTACTGTCCGAGAGGGAGTATGCTAG
Seq A exon
GTATCACAGGACAGTAAATTGATTAAGAAACATCTCAGAGAACCTATGTTTTCATAACATATATCAGCTATAGGACTAACGGTTATTTGCGAATATCCATCGTTCAGCAG
Seq C2 exon
TTCAGGGCGTTCTTGGAGATTGTCAACATCACATTCAGTCAGGTTTCACACTGAACCGTCCAGTGGATGTTGTGGGGTTTTAACTAGACAAATAAAATCTCGCTAAGCCTCACGATGTTTTTGTTCAAAAAGAAAAAACCCAGTGGCGATTCCAGGAAACGTCTCGAGTACCAGCTGTGTTTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000060683-0-0,1-0,2-0-2/3
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=0.000
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Human
(hg19)
No conservation detected
Mouse
(mm10)
No conservation detected
Mouse
(mm9)
No conservation detected
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTGGCAACCTTTCACACTGCG
R:
CTGGAATCGCCACTGGGTTTT
Band lengths:
256-366
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]