RnoALTA0009201-2/2 @ rn6
Alternative 3'ss
Gene
ENSRNOG00000060460 | Clec1a
Description
C-type lectin domain family 1, member A [Source:RGD Symbol;Acc:1566110]
Coordinates
chr4:163194739-163197102:-
Coord C1 exon
chr4:163196951-163197102
Coord A exon
chr4:163194806-163194857
Coord C2 exon
chr4:163194739-163194805
Length
52 bp
Sequences
Splice sites
5' ss Seq
CTGGTAAGT
5' ss Score
10.65
3' ss Seq
TTCTTGTATGCCTTTCACAGGAT
3' ss Score
8.27
Exon sequences
Seq C1 exon
GACATAGATGCAGTCCTTGCCCAGAAAAATGGAAGTGGCATGGGAACAAATGTTATCAGTTCTACAAAGAAAGTAAAACCTGGCAAAGCTGTGAATACTTCTGCCTGGCTGACAATGCCACCATGCTGAAGATAAGCACTCAGGAAGAGCTG
Seq A exon
GATTTTGCCATGCCCCAGAGCTACTCTGAGTTTTTCTACTCTTATTGGACAG
Seq C2 exon
GGCTCTCCCGCAATGGCAGTGGCAAAGCCTGGCTGTGGACAGATGGGACACCTTACTCCTTTGAACT
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000060460-3-6,3-5-2/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF043759=HemX=PD(22.9=62.7),PF041569=IncA=PD(0.1=0.0),PF0005916=Lectin_C=PU(25.5=52.9)
A:
NA
C2:
PF0005916=Lectin_C=FE(36.8=100)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg19)
No conservation detected
Mouse
(mm9)
No conservation detected
Cow
(bosTau6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AAAACCTGGCAAAGCTGTGAA
R:
AAGGTGTCCCATCTGTCCACA
Band lengths:
132-184
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]