BtaALTA0031260-2/2 @ bosTau6
Alternative 3'ss
Gene
ENSBTAG00000018920 | TRIM47
Description
tripartite motif containing 47 [Source:HGNC Symbol;Acc:HGNC:19020]
Coordinates
chr19:56375782-56376526:+
Coord C1 exon
chr19:56375782-56375980
Coord A exon
chr19:56376452-56376454
Coord C2 exon
chr19:56376455-56376526
Length
3 bp
Sequences
Splice sites
5' ss Seq
AAGGTGGGC
5' ss Score
7.93
3' ss Seq
GTCTGTCTCCTCTTTGGCAGCAG
3' ss Score
6.28
Exon sequences
Seq C1 exon
GAGCTCCTGGCACTCCGGCTGGCCCTGGAGGAGGGGTGTGGCCCTGGGCCCGGACCACCGAAGGAGCTCAGCTTCACCAAGTCCTCCCAGGCTGTGCGCGCGGTGCGAGCCGTCCTGGCTGCAGCCTGTTCCAGCCAGTGGGAGCAGCTGCGGGGGCTGGGCGGTGACGAAGACGGGCTGCAGAAGCCGGGCACGGAAG
Seq A exon
CAG
Seq C2 exon
ACGCTGAGTCCCAGGACCCTGACAGCACCAACAACCTGGAGAGTGAGGCTCCTAGGGATTACTTCCTCAAGT
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000018920-3-5,3-4-2/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.463 A=NA C2=0.577
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
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:
CAGCCTGTTCCAGCCAGTG
R:
CTGTCAGGGTCCTGGGACTC
Band lengths:
103-106
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development