BtaALTA0029203-3/4 @ bosTau6
Alternative 3'ss
Gene
ENSBTAG00000030384 | SURF1
Description
surfeit 1 [Source:HGNC Symbol;Acc:HGNC:11474]
Coordinates
chr11:104315458-104315689:-
Coord C1 exon
chr11:104315608-104315689
Coord A exon
chr11:104315485-104315510
Coord C2 exon
chr11:104315458-104315484
Length
26 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGC
5' ss Score
8.05
3' ss Seq
AAGGTACGGACTCTGTGCAGCCA
3' ss Score
2.99
Exon sequences
Seq C1 exon
AGAGCACAGTCCCTGGAGGGCCCATCGGAGGGCAGACCAGAGTCACCCTGCGGAACGAGCACCTGCAGTACATCATCACCTG
Seq A exon
CCACATCATACCTCTGGTGCAAGAAG
Seq C2 exon
TTCCTAAGTTGGACTCCTGGTGTGTGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000030384-25-25,25-24,25-23,25-22-3/4
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (No Ref, Alt. Stop)
No structure available
Features
Disorder rate (Iupred):
C1=0.071 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0210410=SURF1=FE(12.3=100)
A:
NA
C2:
PF0210410=SURF1=PD(2.7=25.0)
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:
AGAGCACAGTCCCTGGAGG
R:
TCACACACCAGGAGTCCAACT
Band lengths:
109-135
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development