RnoALTA0027456-3/5 @ rn6
Alternative 3'ss
Gene
ENSRNOG00000014584 | Odf2
Description
outer dense fiber of sperm tails 2 [Source:RGD Symbol;Acc:3229]
Coordinates
chr3:8452758-8453716:+
Coord C1 exon
chr3:8452758-8452848
Coord A exon
chr3:8453563-8453602
Coord C2 exon
chr3:8453603-8453716
Length
40 bp
Sequences
Splice sites
5' ss Seq
ACGGTAGGT
5' ss Score
10.15
3' ss Seq
CCTAGTTTACTCATCCACAGATC
3' ss Score
7.18
Exon sequences
Seq C1 exon
GTTTCCATCGTGTGGGAAGAACGGAGTAACGAGTCTCACACAGAAAAAAGTCTTGAGAACACCTTGTGGCGCACCCAGTGTAACTGTGACG
Seq A exon
ATCGATCTTTTTTGTGTTGCCCTCCCCTGCCTGCCAGAAG
Seq C2 exon
TGAACCATGAAGGACCGATCTTCAACTCCCCCCTTACATGTTCATGTGGATGAGAACACTCCTGTCCACGTCCACATAAAAAAACTCCCGAAACCATCAGCAGCCAGCAGCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000014584-14-12,14-11,14-10,14-9,14-8-3/5
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
In the CDS, with uncertain impact
No structure available
Features
Disorder rate (Iupred):
C1=0.560 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF106014=zf-LITAF-like=FE(60.0=100)
A:
NA
C2:
PF106014=zf-LITAF-like=PD(34.0=54.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCTTGAGAACACCTTGTGGCG
R:
CTGCTGATGGTTTCGGGAGTT
Band lengths:
144-184
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]