DreALTA0002994-2/2 @ 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
chr4:5390344-5390522
Coord C2 exon
chr4:5390523-5390652
Length
179 bp
Sequences
Splice sites
5' ss Seq
ACTGTAAGT
5' ss Score
8.59
3' ss Seq
GTTCATTAATGTGGATTCAGCTC
3' ss Score
2.41
Exon sequences
Seq C1 exon
CAAAAATGAGACTGGCGAGTGGTGACGGCTCCTGTTCTGGACGAGTGGAGGTTTTCCTCCACAGCCAGTGGGCAACAGTGTATGATGATGGCTGGGATCTGTCAGATGCTGCAGTGGTGTGTAGAGAGATGGGCTGTGGAGATGCTGCACAGGCAAAGAGTAATGCTTATTTCGGACAAGGAACTGGACAAACATACATGTCCAATGTAAACTGTGTTGGAAATGAGTCCTCACTGAGTGTCTGTGAATCACTTAAGCCGAAAAGTACTGACCATTCGAAGGACGCTGGGGTCATCTGCGACT
Seq A exon
CTCCTGTCAGGCTCATTAATGGAAATAACTCGTGTTCTGGACGAGTGGAGGTTTTCTATAGTGGTCAGTGGGGAACAGTGTGTGGTGATGGCTGGGATCTGACAGATGCTGCAGTGCTGTGTAAAGATCTGGGATGTGGAGATGCCATTGAGGTCAAAAATGATAATTATTTTGGCCAG
Seq C2 exon
GGATCGGGGCCGGTATGGCTAAGTAATCTGCAGTGCTCTAGTACTGATACAAGGCTGCGAGACTGTAAATCAAGCGGATGGAGGATTGATAGCTGCGGACATGAGAACGATGCAGGAGTTATCTGTCATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000045837-6-8,6-7-2/2
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:
PF0053013=SRCR=WD(100=94.1)
A:
NA
C2:
PF0053013=SRCR=WD(100=94.2)
Main Skipping Isoform:
NA
Other Skipping 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]