DreALTA0002994-1/2 @ danRer10
Alternative 3'ss
Gene
ENSDARG00000045837 | SSC5D (2 of 2)
Description
scavenger receptor cysteine rich family, 5 domains [Source:HGNC Symbol;Acc:HGNC:26641]
Coordinates
chr4:5389568-5390652:+
Coord C1 exon
chr4:5389568-5389870
Coord A exon
NA
Coord C2 exon
chr4:5390523-5390652
Length
0 bp
Sequences
Splice sites
5' ss Seq
ACTGTAAGT
5' ss Score
8.59
3' ss Seq
ATGATAATTATTTTGGCCAGGGA
3' ss Score
2.99
Exon sequences
Seq C1 exon
CAAAAATGAGACTGGCGAGTGGTGACGGCTCCTGTTCTGGACGAGTGGAGGTTTTCCTCCACAGCCAGTGGGCAACAGTGTATGATGATGGCTGGGATCTGTCAGATGCTGCAGTGGTGTGTAGAGAGATGGGCTGTGGAGATGCTGCACAGGCAAAGAGTAATGCTTATTTCGGACAAGGAACTGGACAAACATACATGTCCAATGTAAACTGTGTTGGAAATGAGTCCTCACTGAGTGTCTGTGAATCACTTAAGCCGAAAAGTACTGACCATTCGAAGGACGCTGGGGTCATCTGCGACT
Seq A exon
NA
Seq C2 exon
GGATCGGGGCCGGTATGGCTAAGTAATCTGCAGTGCTCTAGTACTGATACAAGGCTGCGAGACTGTAAATCAAGCGGATGGAGGATTGATAGCTGCGGACATGAGAACGATGCAGGAGTTATCTGTCATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000045837-6-8,6-7-1/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
ORF disruption when splice site is used (sequence exclusion)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0053013=SRCR=WD(100=94.1)
A:
NA
C2:
PF0053013=SRCR=WD(100=94.2)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CGGACAAGGAACTGGACAAACA
R:
CCTGCATCGTTCTCATGTCCG
Band lengths:
247-426
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]