RnoALTD0005540-2/2 @ rn6
Alternative 5'ss
Gene
ENSRNOG00000052954 | Ccdc173
Description
coiled-coil domain containing 173 [Source:RGD Symbol;Acc:1308818]
Coordinates
chr3:56027773-56030738:-
Coord C1 exon
chr3:56030638-56030738
Coord A exon
chr3:56030595-56030637
Coord C2 exon
chr3:56027773-56027999
Length
43 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGC
5' ss Score
9.6
3' ss Seq
CTATGTCTTTAATACATTAGGAA
3' ss Score
4.6
Exon sequences
Seq C1 exon
TAAACAACCAAATGGTTTATCTACCATTCAGTCGCTGACTTCAGCTTGAAAATAGTCTCACAGGCTCTGGACTCACAGGGCTCAGCTTGTTAGAGATGCAG
Seq A exon
GTGCGCTATGGAAGGCGCTCCGGGAAGGCGAAGGAAAGGGCAG
Seq C2 exon
GAATGGAGAGCTATGAAAAAGAAGAGATTCCCTATCCACCTCTCCTACCTAGCACAGTAGATCTCCAGCAGGTCACCATCATTCCACATGCTGAGTGGGAAAGGATTCGGGATAGCCTCAACAAGTTGACAAGAGAAGCAGCGGTCCTTCGTGCAGAAAGAACAGCAAAGAAAAATATGCATATGAAATCCCAAGAATTGGTAAAACACTGGACTAACACATACGCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000052954-0-1,1-1-2/2
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.725 A=NA C2=0.336
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
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:
AGTCTCACAGGCTCTGGACTC
R:
GGAATGATGGTGACCTGCTGG
Band lengths:
133-176
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]