BtaALTA0007326-2/2 @ bosTau6
Alternative 3'ss
Gene
ENSBTAG00000030424 | CLEC1A
Description
Bos taurus C-type lectin domain family 1, member A (CLEC1A), mRNA. [Source:RefSeq mRNA;Acc:NM_001076081]
Coordinates
chr5:100314683-100317326:+
Coord C1 exon
chr5:100314683-100314834
Coord A exon
chr5:100317208-100317259
Coord C2 exon
chr5:100317260-100317326
Length
52 bp
Sequences
Splice sites
5' ss Seq
CTGGTAAGG
5' ss Score
9.68
3' ss Seq
TTCTTGTGTGCCTTTCACAGGAG
3' ss Score
9.47
Exon sequences
Seq C1 exon
AACACAGATGTAGCCCTTGCCCAGAAAAATGGAAATGGCATGGGGACAAATGCTACCAATTCTATAAAGAAAGTAAGAGTTGGCAGGGCTGTGAATATTTCTGCATTGCTGAGAACTCGACTATGCTGAAGATAAACACACAGGAAGTGCTG
Seq A exon
GAGTTTGCCATGCCTCAGAGCTACTCTGAGTTTTTCTACTCTTATTGGACAG
Seq C2 exon
GGCTATCCCGCAACAGCAGCGGCAAGGCCTGGCTGTGGATGGATGGAACCCCTTACTCCTCCGAACT
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000030424-4-6,4-5-2/2
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:
PF083915=Ly49=PD(18.5=39.2),PF039189=CcmH=PD(2.4=3.9),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
(hg38)
No conservation detected
Mouse
(mm10)
No conservation detected
Rat
(rn6)
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:
GTAAGAGTTGGCAGGGCTGTG
R:
CGGAGGAGTAAGGGGTTCCAT
Band lengths:
143-195
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development