BtaALTD0005414-2/2 @ bosTau6
Alternative 5'ss
Gene
ENSBTAG00000030424 | CLEC1A
Description
Bos taurus C-type lectin domain family 1, member A (CLEC1A), mRNA. [Source:RefSeq mRNA;Acc:NM_001076081]
Coordinates
chr5:100311612-100313495:+
Coord C1 exon
chr5:100311612-100311710
Coord A exon
chr5:100311711-100311752
Coord C2 exon
chr5:100313319-100313495
Length
42 bp
Sequences
Splice sites
5' ss Seq
AAGGTTTGT
5' ss Score
7.81
3' ss Seq
CACTTGGTAATTTGATTTAGTTT
3' ss Score
3.88
Exon sequences
Seq C1 exon
AGCACCAGCGTCCCTCTTCTGCTTGGCGTCCAGTGGCCCTGATCCTGCTGACTCTCTGTTTGGTGCTGCTGATTGGCCTGGCAGCTCTGGGGCTTGTGT
Seq A exon
GTAAGTCCGCACTCTGACTTGGGGGAGGATCCTGGTTTCAAG
Seq C2 exon
TTTTTCAGTTCTACCAGCTCTCCAACACTCAGCAAGACAGCATTTTGCAAAAGGAGGAAAAACTGGGGAATCTCTCCCGACAGCTGCAATCTCTCCGAACCCAAAACAGGAAACTTGCAGAAACTCTGCATCACGTGGCTGAGAAACTCTGTCGTGAGCTCTATAACAAAACTGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000030424-1-1,2-1-2/2
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
ORF disruption when splice site is used (sequence inclusion)
No structure available
Features
Disorder rate (Iupred):
C1=0.118 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF083915=Ly49=PU(25.9=82.4),PF041569=IncA=PU(31.8=79.4),PF039189=CcmH=PU(25.3=61.8)
A:
NA
C2:
PF083915=Ly49=FE(54.6=100),PF041569=IncA=PD(67.1=95.0),PF039189=CcmH=FE(71.1=100)
Main Inclusion 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:
ACTCTCTGTTTGGTGCTGCTG
R:
ATTGCAGCTGTCGGGAGAGAT
Band lengths:
139-181
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development