RnoALTA0035137-2/2 @ rn6
Alternative 3'ss
Gene
ENSRNOG00000014398 | Scara5
Description
scavenger receptor class A, member 5 [Source:RGD Symbol;Acc:1306539]
Coordinates
chr15:49153466-49170436:+
Coord C1 exon
chr15:49153466-49153513
Coord A exon
chr15:49170239-49170241
Coord C2 exon
chr15:49170242-49170436
Length
3 bp
Sequences
Splice sites
5' ss Seq
CTGGTAAGG
5' ss Score
9.68
3' ss Seq
AGTAATAATGGTTCTCCCAGCAG
3' ss Score
0.59
Exon sequences
Seq C1 exon
GTGAGAGAGGCCCAAAGGGAGAGAAAGGAGAAAGAGGAGAGAGAGCTG
Seq A exon
CAG
Seq C2 exon
GTGATATGGATTTCACAATGATTCGCCTGGTGAATGGCTCTGGCCCACACCAGGGCCGGGTGGAGGTATTCCACGATCGTCGCTGGGGCACAGTGTGTGATGACGGCTGGGACAAGAAGGATGGGGACGTGGTGTGCCGCATGCTGGGCTTCCACAGTGTGGAGGAGGTGCACCGGACAGCTCGTTTTGGGCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000014398-11-10,11-9-2/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=0.351
Domain overlap (PFAM):
C1:
PF0139113=Collagen=FE(19.8=100)
A:
NA
C2:
PF0139113=Collagen=PD(2.5=3.0),PF0053013=SRCR=PU(56.1=82.1)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg19)
No conservation detected
Mouse
(mm9)
No conservation detected
Cow
(bosTau6)
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:
AGGAGAAAGAGGAGAGAGAGCTG
R:
GCGACGATCGTGGAATACCTC
Band lengths:
106-109
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]