BtaALTA0029218-2/2 @ bosTau6
Alternative 3'ss
Gene
ENSBTAG00000006730 | SUSD2
Description
Bos taurus sushi domain containing 2 (SUSD2), mRNA. [Source:RefSeq mRNA;Acc:NM_001205675]
Coordinates
chr17:73411987-73412485:+
Coord C1 exon
chr17:73411987-73412188
Coord A exon
chr17:73412400-73412403
Coord C2 exon
chr17:73412404-73412485
Length
4 bp
Sequences
Splice sites
5' ss Seq
CACGTGAGC
5' ss Score
5.62
3' ss Seq
AGCCGCCAGCCCCTCTGCAGACA
3' ss Score
2.63
Exon sequences
Seq C1 exon
GGATGTGCAAGCGATCTGGAGCAACGAGCACGCACTGGCCTGGCACCTGGGTGAAGACTTCCGGATGGACCCTGTGGCCTGGGCCCGAAACCAGTGCCTGGCCTGGGAGGAGCTGGAGGACCAGCTGCCCACATTCCTGGAGGAGCTGCCCGACTGCCCCTGCACCCTGGCCCAGGCCCGGGCTGACTCCGGCCGCTTCCAC
Seq A exon
ACAG
Seq C2 exon
ACTACGGCTGTGACCTGGAGCAGGGCAGCGTGTGCACCTACCACCCGGGCGCTGTGCACTGCGTGCGCTCGGTGCAAGCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000006730-5-9,5-8-2/2
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:
PF0378212=AMOP=PU(27.4=58.8)
A:
NA
C2:
PF0378212=AMOP=FE(19.2=100)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CACATTCCTGGAGGAGCTGC
R:
CTCCAGGTCACAGCCGTAGT
Band lengths:
93-97
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development