DreALTA0027975-1/2 @ danRer10
Alternative 3'ss
Gene
ENSDARG00000013892 | sorl1
Description
sortilin-related receptor, L(DLR class) A repeats containing [Source:ZFIN;Acc:ZDB-GENE-050208-22]
Coordinates
chr15:21616428-21616688:-
Coord C1 exon
chr15:21616606-21616688
Coord A exon
NA
Coord C2 exon
chr15:21616428-21616509
Length
0 bp
Sequences
Splice sites
5' ss Seq
AAGGTTAGT
5' ss Score
8.54
3' ss Seq
TCGCTTTCTGTTAGGTGAAGCTC
3' ss Score
-2.9
Exon sequences
Seq C1 exon
CGCTCTCTCCACCTAAAGTGACGATCACCAGCATCACAGAAGACTCAATGAGTTTGTCCATCTCTAATGATTATAAGGTGAAG
Seq A exon
NA
Seq C2 exon
CTCTATATTGTAGTAATTTCTTGGGTATTTGATGAACATGTTAAGGAGAGCTGGAATTACACGGTCCCAGAAACACTGAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000013892-44-48,44-47-1/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (No Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.036 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0004116=fn3=PU(31.7=92.9)
A:
NA
C2:
PF0004116=fn3=FE(35.4=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
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:
AGACTCAATGAGTTTGTCCATCTCT
R:
ACCGTGTAATTCCAGCTCTCCT
Band lengths:
108-114
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]