HsaALTD0000221-2/2 @ hg38
Alternative 5'ss
Gene
ENSG00000204472 | AIF1
Description
allograft inflammatory factor 1 [Source:HGNC Symbol;Acc:HGNC:352]
Coordinates
chr6:31615193-31615582:+
Coord C1 exon
chr6:31615193-31615293
Coord A exon
chr6:31615294-31615354
Coord C2 exon
chr6:31615521-31615582
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
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
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:
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