RnoALTD0016195-3/3 @ rn6
Alternative 5'ss
Gene
ENSRNOG00000054488 | LOC500584
Description
similar to casein kinase 1, gamma 3 isoform 2 [Source:RGD Symbol;Acc:1598209]
Coordinates
chr5:164348017-164353206:-
Coord C1 exon
chr5:164353106-164353206
Coord A exon
chr5:164352773-164353105
Coord C2 exon
chr5:164348017-164348124
Length
333 bp
Sequences
Splice sites
5' ss Seq
CAGGTACTC
5' ss Score
7.04
3' ss Seq
CTAAGTTGTATTAATTTCAGCTT
3' ss Score
4.15
Exon sequences
Seq C1 exon
ATTTTCAGGTCTCTATATGCTCAGCCAATCTCCATAATTGCAAATCAAAACTAGGAGCCCTGGTCGGTAAAGGCCAAAGAGACTTCTAACAAAGGATCCAG
Seq A exon
GTATCACCACAGAATACACTGTCAGTTTTTATGTCACCAATTTATGCTGCATAATTTCTTCTTCCTGATCTGAAACCCAAGATTCACAAATAACACTCTTTATTGTGAAGAAATATGTTTTCATCTATTCTGACTTCTACAAGGATTTTATTGTGAACTCCTTTGAAGATTATTTGATTAAATTTTGTTCTTTTTGTGATTGTATTTCTTAGGATTTTTAATTTGGAAGGTTTTGCTGGCCTCATGAGCAGCTATGTGTGGTTCAGATTGTTCTCCATTGATTGTGTGAGTAGAGACTTACTGTGTTCATGAGGAATCATTCCTACTTTTCAG
Seq C2 exon
CTTTTAGTTTTCAAACCTGGTTGTGAAATTTCAAGAAAACTTCCAATATTTGAATCTGTGAGAAGAACAGCAAAAAGAATGAGTGTGGCTCTGGGAAACACTCTACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000054488-0-0,1-0,2-0-3/3
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=0.000
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
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:
TTCAGGTCTCTATATGCTCAGCCA
R:
CTGTAGAGTGTTTCCCAGAGCC
Band lengths:
206-539
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]