HsaALTD0000955-2/3 @ hg19
Alternative 5'ss
Gene
ENSG00000183597 | C22orf25
Description
chromosome 22 open reading frame 25 [Source:HGNC Symbol;Acc:25439]
Coordinates
chr22:20049053-20050965:+
Coord C1 exon
chr22:20049053-20049204
Coord A exon
chr22:20049205-20049206
Coord C2 exon
chr22:20050861-20050965
Length
2 bp
Sequences
Splice sites
5' ss Seq
GGCGTGAGT
5' ss Score
7
3' ss Seq
CACTTCTCTCCATCCTGCAGGCA
3' ss Score
9.95
Exon sequences
Seq C1 exon
GCACCTACGGGCTGAGCAACGCGCTGCTGGAGACTCCCTGGAGGAAGCTGTGCTTTGGGAAGCAGCTCTTCCTGGAGGCTGTGGAACGGAGCCAGGCGCTGCCCAAGGATGTGCTCATCGCCAGCCTCCTGGATGTGCTCAACAATGAAGAG
Seq A exon
GC
Seq C2 exon
GCAGCTGCCAGACCCGGCCATCGAGGACCAGGGTGGGGAGTACGTGCAGCCCATGCTGAGCAAGTACGCGGCTGTGTGCGTGCGCTGCCCTGGCTACGGCACCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000183597-22-28,23-28,24-28-2/3
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.153
Domain overlap (PFAM):
C1:
PF057427=NRDE=PD(1.1=1.9),PF057427=NRDE=FE(40.5=100)
A:
NA
C2:
PF057427=NRDE=PD(10.6=92.3)
Other Inclusion Isoforms:
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGCCCAAGGATGTGCTCATC
R:
GTACTCCCCACCCTGGTCC
Band lengths:
97-99
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- The Cancer Genome Atlas (TCGA)
- Autistic and control brains
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)