HsaALTD0000221-2/2 @ hg19
Alternative 5'ss
Gene
ENSG00000204472 | AIF1
Description
allograft inflammatory factor 1 [Source:HGNC Symbol;Acc:352]
Coordinates
chr6:31582970-31583359:+
Coord C1 exon
chr6:31582970-31583070
Coord A exon
chr6:31583071-31583131
Coord C2 exon
chr6:31583298-31583359
Length
61 bp
Sequences
Splice sites
5' ss Seq
AGGGTAGGG
5' ss Score
5.76
3' ss Seq
TAATTTTTTTCACCCCACAGGAG
3' ss Score
9.09
Exon sequences
Seq C1 exon
AGAGGAGGAAGGAATGAGGGGAAAGGGGAAGTTTGGGAGGAAGGCTTCTGAGAAGACTGGTGGGAGAGAAGGAGAGCCTGCAGACAGAGGCCTCCAGCTTG
Seq A exon
GTCTGTCTCCCCACCTCTACCAGCATCTGCTGAGCTATGAGCCAAACCAGGGATTTACAGG
Seq C2 exon
GAGGAAAAGCTTTCGGACTGCTGAAGGCCCAGCAGGAAGAGAGGCTGGATGAGATCAACAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000204472-0-0,1-0-2/2
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.656 A=NA C2=0.119
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF134991=EF-hand_7=PU(13.7=61.9)
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
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:
GGAAAGGGGAAGTTTGGGAGG
R:
TCATCCAGCCTCTCTTCCTGC
Band lengths:
134-195
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
- Pre-implantation embryo development
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)