DreALTD0002004-1/2 @ danRer10
Alternative 5'ss
Gene
ENSDARG00000045837 | SSC5D (2 of 2)
Description
scavenger receptor cysteine rich family, 5 domains [Source:HGNC Symbol;Acc:HGNC:26641]
Coordinates
chr4:5406638-5408121:+
Coord C1 exon
chr4:5406638-5406856
Coord A exon
NA
Coord C2 exon
chr4:5407997-5408121
Length
0 bp
Sequences
Splice sites
5' ss Seq
GCAGTGAGT
5' ss Score
7.39
3' ss Seq
TCTTTTATACTGCTCTGTAGATT
3' ss Score
7.84
Exon sequences
Seq C1 exon
TCCCTGTCAGGCTGACGGGTGGAAGAGACGCATGTTCTGGACTTGTGGAGGTTTTTCATGACGGTCAGTGGGGGACGGTGAATGCTGATGGCTGGGATCTGGCAGACGCTGCAGTGGTGTGTAGAGAGATGGGATGTGGAGATGCTGTACAGGCAACGGGCGGTGCTTTTGGACGAGGAATTGGTCCAATATGGATGACTTTAGTCGACTGTGTTGGCA
Seq A exon
NA
Seq C2 exon
ATTCCAGTTCATTTAGCATCAGCTCTACTCAGGACTCAAGTGTTAAAGTCCTGTTGAGGATTAAAGTGAAGACTGACGCCCGATTCAACCCTAACAACCCTAAAACCCTGAGTAAAATCACAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000045837-16-20,17-20-1/2
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (No Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.167
Domain overlap (PFAM):
C1:
PF0053013=SRCR=WD(100=94.2)
A:
NA
C2:
NA
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
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:
GAGATGCTGTACAGGCAACGG
R:
TTGTTAGGGTTGAATCGGGCG
Band lengths:
178-265
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]