RnoALTA0028888-2/2 @ rn6
Alternative 3'ss
Gene
ENSRNOG00000000480 | Phf1
Description
PHD finger protein 1 [Source:RGD Symbol;Acc:1303205]
Coordinates
chr20:5526975-5528225:+
Coord C1 exon
chr20:5526975-5527384
Coord A exon
chr20:5528046-5528050
Coord C2 exon
chr20:5528051-5528225
Length
5 bp
Sequences
Splice sites
5' ss Seq
CCGGTAAGG
5' ss Score
10.19
3' ss Seq
CTCTAACCATCCTGTTTCAGAAT
3' ss Score
8.28
Exon sequences
Seq C1 exon
AGAAGGTTATTTCCTGCTGCCCTCAGAGCAAGCCTCCTATCCGAAAAGGGGGCTACAGGGATTTCCTCGTCCTCCCCGACCGGCCGCGCCTCCAATAGCGCAGCGCCCTCCGGGCCTACTGGAGGTGAGGGAGGTGCTGCCTACCCGCCCCTCCGTCGTCTCCTCCCACTGGTGCTCCCCACCCTCCACTCTCCTCCCTCCTTCTGTCGACTCCTCCTGCCGCTGCTGCTGCTTTGGCTGCTGCGTCATACGCCCCAGAGCGGCCAGGACGGAGGGGCTGGGCCCGGGGACCCCCCTGGCCTCCACCTGCACGCCCCTCGGCGCTCACACTCAGTCTTCCCGCACCGGGGACTCACCCAGATCTCTTGGGTCTGCCCCTACCTGGCTTCCAGCTGCCCCAGCTGTCACCG
Seq A exon
AATAG
Seq C2 exon
CCCACCCCAGGATGCAATGGCGCAGCTCCCCCGGCTGAGCCGTTTGGGTGCTCCCTCTCTTTGGGACCCAGCCTCCCCTGCTCCCACCTCAGGCCCCAGACCTCGGCTTTGGGAAGGTCAAGATGTGCTGGCAAGATGGACTGATGGGCTCCTGTACTTGGGCACCATCAAAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000000480-2-3,2-2-2/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=0.226
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
PF150571=DUF4537=PU(33.3=35.8)
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:
CTCACACTCAGTCTTCCCGCA
R:
CATTGCATCCTGGGGTGGG
Band lengths:
106-111
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]