BtaALTD0020531-2/2 @ bosTau6
Alternative 5'ss
Gene
ENSBTAG00000000054 | SNAPC4
Description
small nuclear RNA activating complex, polypeptide 4, 190kDa [Source:HGNC Symbol;Acc:HGNC:11137]
Coordinates
chr11:103895182-103897259:-
Coord C1 exon
chr11:103897196-103897259
Coord A exon
chr11:103897168-103897195
Coord C2 exon
chr11:103895182-103895329
Length
28 bp
Sequences
Splice sites
5' ss Seq
TCGGTGAGT
5' ss Score
11.11
3' ss Seq
TGTTTTTATGTCGCCTTCAGATA
3' ss Score
10.05
Exon sequences
Seq C1 exon
TTGCTTCAAGCAGTTGCCAAGTATGGGGAGCAGGATTGGTTTAAAATCCGGGAAGAGGTGCCAG
Seq A exon
GTAGGAGCGATGCCCAGTGCCGAGATCG
Seq C2 exon
ATATCTCAGAAGGTTACATTTCAGCTTGAAAAAGGGACGATGGAATTCCAAAGAAGTGAAGAAGTTAATTGAATTGATAGAAAAATACGGCGTTGGTAAGCCCGGACTCCCGTGTTTGCGTACCGTTCACTCACGTGGTGGTGGTAAC
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000000054-15-18,16-18-2/2
Average complexity
Alt5
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:
PF139211=Myb_DNA-bind_6=FE(50.8=100)
A:
NA
C2:
PF139211=Myb_DNA-bind_6=PD(36.1=44.0)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
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:
TAAAATCCGGGAAGAGGTGCC
R:
GGGCTTACCAACGCCGTATTT
Band lengths:
126-154
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development