BtaALTA0028724-1/2 @ bosTau6
Alternative 3'ss
Gene
ENSBTAG00000030885 | SSC5D
Description
scavenger receptor cysteine rich family, 5 domains [Source:HGNC Symbol;Acc:HGNC:26641]
Coordinates
chr18:62461615-62462580:-
Coord C1 exon
chr18:62462011-62462580
Coord A exon
NA
Coord C2 exon
chr18:62461615-62461929
Length
0 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGC
5' ss Score
9.6
3' ss Seq
TCCATGCCTCCCACCAGCAGGCC
3' ss Score
7
Exon sequences
Seq C1 exon
GGACGCCTGGCTCCCGGGGGAGCTGGCCACCAAGCCATCTGCGAGGCAGACCCCCAGCATCCCTGAGAAAACCACCAAGGCCCCAGGGAAGATGCCCAAAAGCACCAAGAAGTGGGTGACCAAGAACGCAAAGAGACCAACCACTCAGCCCCCGGCGATGCCAACCACTAAGCACTCCAGGGTCTCAGGAACCCAGAGTCCCCCTGAACTGACCTCACGGACCACCAGCACCCTGGCCACGGGGGCCTCCCGAAGACCCACCTCTGAGTTTACCACCAGGCTGACCACGCAGGCCCCCCGCAGGCTGACCTCACACACCACCGTAACTCGGACTTCTCGAGCCCCCAGGGAACGGACCTCTAAGACTGTGGCGACGCTCGCCACCCAGGGCCCCCGATTAGTGACCTCCGAGGCCACCGTGGAGCCATCCGCTGAGCTCCCAGGACAAGGTTCTCCAGAGTCATCCACGGACCCGGCCCCCTCCCCCACCGGCGCAGCAG
Seq A exon
NA
Seq C2 exon
GCCCGTTCAGGGTTCGTCTGGCGGACGGGCCCAACCGGTGTGCCGGGCGGCTGGAGGTGTGGCACGCCGGACAATGGGGGACGGTCTGTGACGACGGCTGGGACCTGCGGGACGGCATGGTGACCTGCTGGGAGCTGGGCTGCGGGAGGGTCCGGCCTCGAGTGGGCAAAACCCACTACGGCCCCGGGACCGGGCCCATCTGGCTGGATGACGTGGGCTGCAAGGGCAGCGAATCCTCGCTGAGCGACTGCCCGGCCCGGGCGTGGGGACAGCACAACTGCGACCACGAGGAGGACGTGGGGCTCACCTGCACTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000030885-9-14,9-13-1/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
In the CDS, with uncertain impact
No structure available
Features
Disorder rate (Iupred):
C1=0.890 A=NA C2=NA
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NA
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:
GCTGAGCTCCCAGGACAAGG
R:
GCCAGACGAACCCTGAACG
Band lengths:
92-95
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development